From f7cb0f7eb7497647d847cd5ad0c4d6c62edbea80 Mon Sep 17 00:00:00 2001
From: Moshe Anconina <anconina@gmail.com>
Date: Sun, 21 Sep 2025 04:54:42 +0300
Subject: [PATCH] feat: Add Deep Research System v4.2.0 (#380)
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feat: Add Deep Research System v4.2.0 - Autonomous web research capabilities

## Overview
Comprehensive implementation of Deep Research framework aligned with DR Agent architecture, enabling autonomous, adaptive, and intelligent web research capabilities.

## Key Features

### 🔬 Deep Research Agent
- 15th specialized agent for comprehensive research orchestration
- Adaptive planning strategies: Planning-Only, Intent-Planning, Unified Intent-Planning
- Multi-hop reasoning with genealogy tracking (up to 5 hops)
- Self-reflective mechanisms with confidence scoring (0.0-1.0)
- Case-based learning for cross-session intelligence

### 🎯 New /sc:research Command
- Intelligent web research with depth control (quick/standard/deep/exhaustive)
- Parallel-first execution for optimal performance
- Domain filtering and time-based search options
- Automatic report generation in claudedocs/

### 🔍 Tavily MCP Integration
- 7th MCP server for real-time web search
- News search with time filtering
- Content extraction from search results
- Multi-round searching with iterative refinement
- Free tier available with optional API key

### 🎨 MODE_DeepResearch
- 7th behavioral mode for systematic investigation
- 6-phase workflow: Understand → Plan → TodoWrite → Execute → Track → Validate
- Evidence-based reasoning with citation management
- Parallel operation defaults for efficiency

## Technical Changes

### Framework Updates
- Updated agent count: 14 → 15 agents
- Updated mode count: 6 → 7 modes
- Updated MCP server count: 6 → 7 servers
- Updated command count: 24 → 25 commands

### Configuration
- Added RESEARCH_CONFIG.md for research settings
- Added deep_research_workflows.md with examples
- Standardized file naming conventions (UPPERCASE for Core)
- Removed multi-source investigation features for simplification

### Integration Points
- Enhanced MCP component with remote server support
- Added check_research_prerequisites() in environment.py
- Created verify_research_integration.sh script
- Updated all documentation guides

## Requirements
- TAVILY_API_KEY environment variable (free tier available)
- Node.js and npm for Tavily MCP execution

## Documentation
- Complete user guide integration
- Workflow examples and best practices
- API configuration instructions
- Depth level explanations

🤖 Generated with Claude Code

Co-authored-by: moshe_anconina <moshe_a@ituran.com>
Co-authored-by: Claude <noreply@anthropic.com>
---
 CHANGELOG.md                                  |  32 +-
 .../Developer-Guide/technical-architecture.md |  21 +-
 Docs/User-Guide/agents.md                     |  46 +-
 Docs/User-Guide/commands.md                   |  23 +-
 Docs/User-Guide/mcp-servers.md                |  50 +-
 Docs/User-Guide/modes.md                      |  55 ++
 README.md                                     | 115 +++-
 SuperClaude/Agents/deep-research-agent.md     | 185 +++++++
 SuperClaude/Commands/research.md              | 103 ++++
 SuperClaude/Core/RESEARCH_CONFIG.md           | 446 ++++++++++++++++
 .../Examples/deep_research_workflows.md       | 495 ++++++++++++++++++
 SuperClaude/MCP/MCP_Tavily.md                 | 285 ++++++++++
 SuperClaude/MCP/configs/tavily.json           |  13 +
 SuperClaude/Modes/MODE_DeepResearch.md        |  58 ++
 VERSION                                       |   2 +-
 scripts/verify_research_integration.sh        | 168 ++++++
 setup/__init__.py                             |   2 +-
 setup/components/agents.py                    |   2 +-
 setup/components/mcp.py                       |  56 +-
 setup/components/mcp_docs.py                  |   3 +-
 setup/components/modes.py                     |   2 +-
 setup/utils/environment.py                    |  46 +-
 22 files changed, 2169 insertions(+), 39 deletions(-)
 create mode 100644 SuperClaude/Agents/deep-research-agent.md
 create mode 100644 SuperClaude/Commands/research.md
 create mode 100644 SuperClaude/Core/RESEARCH_CONFIG.md
 create mode 100644 SuperClaude/Examples/deep_research_workflows.md
 create mode 100644 SuperClaude/MCP/MCP_Tavily.md
 create mode 100644 SuperClaude/MCP/configs/tavily.json
 create mode 100644 SuperClaude/Modes/MODE_DeepResearch.md
 create mode 100755 scripts/verify_research_integration.sh

diff --git a/CHANGELOG.md b/CHANGELOG.md
index adc6279..2d003b5 100644
--- a/CHANGELOG.md
+++ b/CHANGELOG.md
@@ -7,6 +7,37 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0
 
 ## [Unreleased]
 
+## [4.2.0] - 2025-09-18
+### Added
+- **Deep Research System** - Complete implementation of autonomous web research capabilities
+  - New `/sc:research` command for intelligent web research with DR Agent architecture
+  - `deep-research-agent` - 15th specialized agent for research orchestration
+  - `MODE_DeepResearch` - 7th behavioral mode for research workflows
+  - Tavily MCP integration (7th MCP server) for real-time web search
+  - Research configuration system (`RESEARCH_CONFIG.md`)
+  - Comprehensive workflow examples (`deep_research_workflows.md`)
+  - Three planning strategies: Planning-Only, Intent-to-Planning, Unified Intent-Planning
+  - Multi-hop reasoning with genealogy tracking for complex queries
+  - Case-based reasoning for learning from past research patterns
+
+### Changed
+- Updated agent count from 14 to 15 (added deep-research-agent)
+- Updated mode count from 6 to 7 (added MODE_DeepResearch)
+- Updated MCP server count from 6 to 7 (added Tavily)
+- Updated command count from 24 to 25 (added /sc:research)
+- Enhanced MCP component with remote server support for Tavily
+- Added `_install_remote_mcp_server` method to handle remote MCP configurations
+
+### Technical
+- Added Tavily to `server_docs_map` in `setup/components/mcp_docs.py`
+- Implemented remote MCP server handler in `setup/components/mcp.py`
+- Added `check_research_prerequisites()` function in `setup/utils/environment.py`
+- Created verification script `scripts/verify_research_integration.sh`
+
+### Requirements
+- `TAVILY_API_KEY` environment variable for web search functionality
+- Node.js and npm for Tavily MCP execution
+
 ## [4.1.4] - 2025-09-20
 ### Added
 - Comprehensive flag documentation integrated into `/sc:help` command
@@ -19,7 +50,6 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0
 - Smart server merging (existing + selected + previously installed)
 - Documentation cleanup: removed non-existent commands (sc:fix, sc:simple-pix, sc:update, sc:develop, sc:modernize, sc:simple-fix)
 - CLI logic to allow mcp_docs installation without server selection
-
 ### Changed
 - MCP component now supports true incremental installation
 - mcp_docs component auto-detects and installs documentation for all detected servers
diff --git a/Docs/Developer-Guide/technical-architecture.md b/Docs/Developer-Guide/technical-architecture.md
index d5b1165..3fb331a 100644
--- a/Docs/Developer-Guide/technical-architecture.md
+++ b/Docs/Developer-Guide/technical-architecture.md
@@ -34,14 +34,19 @@ This guide documents how SuperClaude's Context-Oriented Configuration Framework
 ├── MCP_Playwright.md               # Playwright MCP integration
 ├── MCP_Sequential.md               # Sequential MCP integration
 ├── MCP_Serena.md                   # Serena MCP integration
+├── MCP_Tavily.md                   # Tavily MCP integration
 ├── MCP_Zig.md                      # Zig MCP integration
 ├── MODE_Brainstorming.md           # Collaborative discovery mode
+├── MODE_Business_Panel.md          # Business expert panel mode
+├── MODE_DeepResearch.md            # Deep research mode
 ├── MODE_Introspection.md           # Transparent reasoning mode
 ├── MODE_Orchestration.md           # Tool coordination mode
 ├── MODE_Task_Management.md         # Task orchestration mode
 ├── MODE_Token_Efficiency.md        # Compressed communication mode
-├── agents/                         # Domain specialist contexts (14 total)
+├── agents/                         # Domain specialist contexts (19 total)
 │   ├── backend-architect.md        # Backend expertise
+│   ├── business-panel-experts.md   # Business strategy panel
+│   ├── deep-research-agent.md      # Deep research expertise
 │   ├── devops-architect.md         # DevOps expertise
 │   ├── frontend-architect.md       # Frontend expertise
 │   ├── learning-guide.md           # Educational expertise
@@ -53,27 +58,34 @@ This guide documents how SuperClaude's Context-Oriented Configuration Framework
 │   ├── root-cause-analyst.md       # Problem diagnosis expertise
 │   ├── security-engineer.md        # Security expertise
 │   ├── socratic-mentor.md          # Educational expertise
+│   ├── spec-panel-experts.md       # Specification review panel
 │   ├── system-architect.md         # System design expertise
-│   └── technical-writer.md         # Documentation expertise
+│   ├── technical-writer.md         # Documentation expertise
+│   ├── test-runner.md              # Test execution expertise
+│   └── wave-orchestrator.md        # Wave orchestration patterns
 └── commands/                       # Workflow pattern contexts
-    └── sc/                         # SuperClaude command namespace (21 total)
+    └── sc/                         # SuperClaude command namespace (25 total)
         ├── analyze.md              # Analysis patterns
         ├── brainstorm.md           # Discovery patterns
         ├── build.md                # Build patterns
+        ├── business-panel.md       # Business expert panel patterns
         ├── cleanup.md              # Cleanup patterns
         ├── design.md               # Design patterns
         ├── document.md             # Documentation patterns
         ├── estimate.md             # Estimation patterns
         ├── explain.md              # Explanation patterns
         ├── git.md                  # Git workflow patterns
+        ├── help.md                 # Help and command listing
         ├── implement.md            # Implementation patterns
         ├── improve.md              # Improvement patterns
         ├── index.md                # Index patterns
         ├── load.md                 # Context loading patterns
         ├── reflect.md              # Reflection patterns
+        ├── research.md             # Deep research patterns
         ├── save.md                 # Session persistence patterns
         ├── select-tool.md          # Tool selection patterns
         ├── spawn.md                # Multi-agent patterns
+        ├── spec-panel.md           # Specification review panel
         ├── task.md                 # Task management patterns
         ├── test.md                 # Testing patterns
         ├── troubleshoot.md         # Troubleshooting patterns
@@ -112,9 +124,12 @@ The main `CLAUDE.md` file uses an import system to load multiple context files:
 @MCP_Playwright.md         # Playwright MCP integration
 @MCP_Sequential.md         # Sequential MCP integration
 @MCP_Serena.md             # Serena MCP integration
+@MCP_Tavily.md             # Tavily MCP integration
 @MCP_Zig.md                # Zig MCP integration
 *CRITICAL*
 @MODE_Brainstorming.md     # Collaborative discovery mode
+@MODE_Business_Panel.md    # Business expert panel mode
+@MODE_DeepResearch.md      # Deep research mode
 @MODE_Introspection.md     # Transparent reasoning mode
 @MODE_Task_Management.md   # Task orchestration mode
 @MODE_Orchestration.md     # Tool coordination mode
diff --git a/Docs/User-Guide/agents.md b/Docs/User-Guide/agents.md
index 4bc12fb..1995203 100644
--- a/Docs/User-Guide/agents.md
+++ b/Docs/User-Guide/agents.md
@@ -1,6 +1,6 @@
 # SuperClaude Agents Guide 🤖
 
-SuperClaude provides 14 domain specialist agents that Claude Code can invoke for specialized expertise.
+SuperClaude provides 15 domain specialist agents that Claude Code can invoke for specialized expertise.
 
 
 ## 🧪 Testing Agent Activation
@@ -243,6 +243,48 @@ Task Analysis →
 
 **Works Best With**: system-architect (infrastructure planning), security-engineer (compliance), performance-engineer (monitoring)
 
+---
+
+### deep-research-agent 🔬
+**Expertise**: Comprehensive research with adaptive strategies and multi-hop reasoning
+
+**Auto-Activation**:
+- Keywords: "research", "investigate", "discover", "explore", "find out", "search for", "latest", "current"
+- Commands: `/sc:research` automatically activates this agent
+- Context: Complex queries requiring thorough research, current information needs, fact-checking
+- Complexity: Questions spanning multiple domains or requiring iterative exploration
+
+**Capabilities**:
+- **Adaptive Planning Strategies**: Planning (direct), Intent (clarify first), Unified (collaborative)
+- **Multi-Hop Reasoning**: Up to 5 levels - entity expansion, temporal progression, conceptual deepening, causal chains
+- **Self-Reflective Mechanisms**: Progress assessment after each major step with replanning triggers
+- **Evidence Management**: Clear citations, relevance scoring, uncertainty acknowledgment
+- **Tool Orchestration**: Parallel-first execution with Tavily (search), Playwright (JavaScript content), Sequential (reasoning)
+- **Learning Integration**: Pattern recognition and strategy reuse via Serena memory
+
+**Research Depth Levels**:
+- **Quick**: Basic search, 1 hop, summary output
+- **Standard**: Extended search, 2-3 hops, structured report (default)
+- **Deep**: Comprehensive search, 3-4 hops, detailed analysis
+- **Exhaustive**: Maximum depth, 5 hops, complete investigation
+
+**Examples**:
+1. **Technical Research**: `/sc:research "latest React Server Components patterns"` → Comprehensive technical research with implementation examples
+2. **Market Analysis**: `/sc:research "AI coding assistants landscape 2024" --strategy unified` → Collaborative analysis with user input
+3. **Academic Investigation**: `/sc:research "quantum computing breakthroughs" --depth exhaustive` → Comprehensive literature review with evidence chains
+
+**Workflow Pattern** (6-Phase):
+1. **Understand** (5-10%): Assess query complexity
+2. **Plan** (10-15%): Select strategy and identify parallel opportunities  
+3. **TodoWrite** (5%): Create adaptive task hierarchy (3-15 tasks)
+4. **Execute** (50-60%): Parallel searches and extractions
+5. **Track** (Continuous): Monitor progress and confidence
+6. **Validate** (10-15%): Verify evidence chains
+
+**Output**: Reports saved to `claudedocs/research_[topic]_[timestamp].md`
+
+**Works Best With**: system-architect (technical research), learning-guide (educational research), requirements-analyst (market research)
+
 ### Quality & Analysis Agents 🔍
 
 ### security-engineer 🔒
@@ -618,6 +660,7 @@ After applying agent fixes, test with:
 | **Documentation** | "documentation", "readme", "API docs" | technical-writer |
 | **Learning** | "explain", "tutorial", "beginner", "teaching" | learning-guide |
 | **Requirements** | "requirements", "PRD", "specification" | requirements-analyst |
+| **Research** | "research", "investigate", "latest", "current" | deep-research-agent |
 
 ### Command-Agent Mapping
 
@@ -631,6 +674,7 @@ After applying agent fixes, test with:
 | `/sc:design` | system-architect | Domain architects, requirements-analyst |
 | `/sc:test` | quality-engineer | security-engineer, performance-engineer |
 | `/sc:explain` | learning-guide | technical-writer, domain specialists |
+| `/sc:research` | deep-research-agent | Technical specialists, learning-guide |
 
 ### Effective Agent Combinations
 
diff --git a/Docs/User-Guide/commands.md b/Docs/User-Guide/commands.md
index 4f62ded..7c3609e 100644
--- a/Docs/User-Guide/commands.md
+++ b/Docs/User-Guide/commands.md
@@ -1,6 +1,6 @@
 # SuperClaude Commands Guide
 
-SuperClaude provides 24 commands for Claude Code: `/sc:*` commands for workflows and `@agent-*` for specialists.
+SuperClaude provides 25 commands for Claude Code: `/sc:*` commands for workflows and `@agent-*` for specialists.
 
 ## Command Types
 
@@ -106,7 +106,7 @@ python3 -m SuperClaude install --list-components | grep mcp
 
 - [Essential Commands](#essential-commands) - Start here (8 core commands)
 - [Common Workflows](#common-workflows) - Command combinations that work
-- [Full Command Reference](#full-command-reference) - All 23 commands organized by category
+- [Full Command Reference](#full-command-reference) - All 25 commands organized by category
 - [Troubleshooting](#troubleshooting) - Common issues and solutions
 - [Command Index](#command-index) - Find commands by category
 
@@ -133,6 +133,24 @@ python3 -m SuperClaude install --list-components | grep mcp
 - Discovering available commands: `/sc:help`
 - Getting a quick reminder of command names: `/sc:help`
 
+### `/sc:research` - Deep Research Command
+**Purpose**: Comprehensive web research with adaptive planning and intelligent search  
+**Syntax**: `/sc:research "[query]"` `[--depth quick|standard|deep|exhaustive] [--strategy planning|intent|unified]`
+
+**Use Cases**:
+- Technical research: `/sc:research "latest React 19 features" --depth deep`
+- Market analysis: `/sc:research "AI coding assistant landscape 2024" --strategy unified`
+- Academic investigation: `/sc:research "quantum computing breakthroughs" --depth exhaustive`
+- Current events: `/sc:research "latest AI developments 2024"`
+
+**Key Capabilities**:
+- **6-Phase Workflow**: Understand → Plan → TodoWrite → Execute → Track → Validate
+- **Adaptive Depth**: Quick (basic search), Standard (extended), Deep (comprehensive), Exhaustive (maximum depth)
+- **Planning Strategies**: Planning (direct), Intent (clarify first), Unified (collaborative)
+- **Parallel Execution**: Default parallel searches and extractions
+- **Evidence Management**: Clear citations with relevance scoring
+- **Output Standards**: Reports saved to `claudedocs/research_[topic]_[timestamp].md`
+
 ### `/sc:implement` - Feature Development  
 **Purpose**: Full-stack feature implementation with intelligent specialist routing  
 **Syntax**: `/sc:implement "feature description"` `[--type frontend|backend|fullstack] [--focus security|performance]`  
@@ -277,6 +295,7 @@ python3 -m SuperClaude install --list-components | grep mcp
 | Command | Purpose | Best For |
 |---------|---------|----------|
 | **analyze** | Code assessment | Quality audits, security reviews |
+| **research** | Web research with intelligent search | Technical research, current events, market analysis |
 | **business-panel** | Strategic analysis | Business decisions, competitive assessment |
 | **spec-panel** | Specification review | Requirements validation, architecture analysis |
 | **troubleshoot** | Problem diagnosis | Bug investigation, performance issues |
diff --git a/Docs/User-Guide/mcp-servers.md b/Docs/User-Guide/mcp-servers.md
index dcca5be..19def2f 100644
--- a/Docs/User-Guide/mcp-servers.md
+++ b/Docs/User-Guide/mcp-servers.md
@@ -2,7 +2,7 @@
 
 ## Overview
 
-MCP (Model Context Protocol) servers extend Claude Code's capabilities through specialized tools. SuperClaude integrates 6 MCP servers and provides Claude with instructions on when to activate them based on your tasks.
+MCP (Model Context Protocol) servers extend Claude Code's capabilities through specialized tools. SuperClaude integrates 7 MCP servers and provides Claude with instructions on when to activate them based on your tasks.
 
 ### 🔍 Reality Check
 - **What MCP servers are**: External Node.js processes that provide additional tools
@@ -17,6 +17,7 @@ MCP (Model Context Protocol) servers extend Claude Code's capabilities through s
 - **playwright**: Browser automation and E2E testing
 - **morphllm-fast-apply**: Pattern-based code transformations
 - **serena**: Semantic code understanding and project memory
+- **tavily**: Web search and real-time information retrieval
 
 ## Quick Start
 
@@ -32,6 +33,7 @@ MCP (Model Context Protocol) servers extend Claude Code's capabilities through s
 | `test`, `e2e`, `browser` | **playwright** |
 | Multi-file edits, refactoring | **morphllm-fast-apply** |
 | Large projects, sessions | **serena** |
+| `/sc:research`, `latest`, `current` | **tavily** |
 
 ## Server Details
 
@@ -119,6 +121,36 @@ export MORPH_API_KEY="your_key_here"
 /sc:refactor "extract UserService" --serena
 ```
 
+### tavily 🔍
+**Purpose**: Web search and real-time information retrieval for research
+**Triggers**: `/sc:research` commands, "latest" information requests, current events, fact-checking
+**Requirements**: Node.js 16+, TAVILY_API_KEY (free tier available at https://app.tavily.com)
+
+```bash
+# Automatic activation
+/sc:research "latest AI developments 2024"
+# → Performs intelligent web research
+
+# Manual activation  
+/sc:analyze "market trends" --tavily
+
+# API key setup (get free key at https://app.tavily.com)
+export TAVILY_API_KEY="tvly-your_api_key_here"
+```
+
+**Capabilities:**
+- **Web Search**: Comprehensive searches with ranking and filtering
+- **News Search**: Time-filtered current events and updates
+- **Content Extraction**: Full-text extraction from search results  
+- **Domain Filtering**: Include/exclude specific domains
+- **Multi-Hop Research**: Iterative searches based on findings (up to 5 hops)
+
+**Research Depth Control:**
+- `--depth quick`: 5-10 sources, basic synthesis
+- `--depth standard`: 10-20 sources, structured report (default)
+- `--depth deep`: 20-40 sources, comprehensive analysis
+- `--depth exhaustive`: 40+ sources, academic-level research
+
 ## Configuration
 
 **MCP Configuration File (`~/.claude.json`):**
@@ -150,6 +182,11 @@ export MORPH_API_KEY="your_key_here"
     "serena": {
       "command": "uvx",
       "args": ["--from", "git+https://github.com/oraios/serena", "serena", "start-mcp-server", "--context", "ide-assistant"]
+    },
+    "tavily": {
+      "command": "npx",
+      "args": ["-y", "@tavily/mcp@latest"],
+      "env": {"TAVILY_API_KEY": "${TAVILY_API_KEY}"}
     }
   }
 }
@@ -211,16 +248,21 @@ export TWENTYFIRST_API_KEY="your_key_here"
 # For Morphllm server (required for bulk transformations)
 export MORPH_API_KEY="your_key_here"
 
+# For Tavily server (required for web search - free tier available)
+export TAVILY_API_KEY="tvly-your_key_here"
+
 # Add to shell profile for persistence
 echo 'export TWENTYFIRST_API_KEY="your_key"' >> ~/.bashrc
 echo 'export MORPH_API_KEY="your_key"' >> ~/.bashrc
+echo 'export TAVILY_API_KEY="your_key"' >> ~/.bashrc
 ```
 
 **Environment Variable Usage:**
 - ✅ `TWENTYFIRST_API_KEY` - Required for Magic MCP server functionality
 - ✅ `MORPH_API_KEY` - Required for Morphllm MCP server functionality  
+- ✅ `TAVILY_API_KEY` - Required for Tavily MCP server functionality (free tier available)
 - ❌ Other env vars in docs - Examples only, not used by framework
-- 📝 Both are paid service API keys, framework works without them
+- 📝 Magic and Morphllm are paid services, Tavily has free tier, framework works without them
 
 ## Server Combinations
 
@@ -238,6 +280,8 @@ echo 'export MORPH_API_KEY="your_key"' >> ~/.bashrc
 - **Web Development**: magic + context7 + playwright  
 - **Enterprise Refactoring**: serena + morphllm + sequential-thinking
 - **Complex Analysis**: sequential-thinking + context7 + serena
+- **Deep Research**: tavily + sequential-thinking + serena + playwright
+- **Current Events**: tavily + context7 + sequential-thinking
 
 ## Integration
 
@@ -245,11 +289,13 @@ echo 'export MORPH_API_KEY="your_key"' >> ~/.bashrc
 - Analysis commands automatically use Sequential + Serena
 - Implementation commands use Magic + Context7
 - Testing commands use Playwright + Sequential
+- Research commands use Tavily + Sequential + Playwright
 
 **With Behavioral Modes:**
 - Brainstorming Mode: Sequential for discovery
 - Task Management: Serena for persistence
 - Orchestration Mode: Optimal server selection
+- Deep Research Mode: Tavily + Sequential + Playwright coordination
 
 **Performance Control:**
 - Automatic resource management based on system load
diff --git a/Docs/User-Guide/modes.md b/Docs/User-Guide/modes.md
index f33dd0a..b1ef9db 100644
--- a/Docs/User-Guide/modes.md
+++ b/Docs/User-Guide/modes.md
@@ -9,6 +9,7 @@ Test modes by using `/sc:` commands - they activate automatically based on task
 |------|---------|---------------|---------------|---------------|
 | **🧠 Brainstorming** | Interactive discovery | "brainstorm", "maybe", vague requests | Socratic questions, requirement elicitation | New project planning, unclear requirements |
 | **🔍 Introspection** | Meta-cognitive analysis | Error recovery, "analyze reasoning" | Transparent thinking markers (🤔, 🎯, 💡) | Debugging, learning, optimization |
+| **🔬 Deep Research** | Systematic investigation mindset | `/sc:research`, investigation keywords | 6-phase workflow, evidence-based reasoning | Technical research, current events, market analysis |
 | **📋 Task Management** | Complex coordination | >3 steps, >2 directories | Phase breakdown, memory persistence | Multi-step operations, project management |
 | **🎯 Orchestration** | Intelligent tool selection | Multi-tool ops, high resource usage | Optimal tool routing, parallel execution | Complex analysis, performance optimization |
 | **⚡ Token Efficiency** | Compressed communication | High context usage, `--uc` flag | Symbol systems, estimated 30-50% token reduction | Resource constraints, large operations |
@@ -120,6 +121,60 @@ Introspective Approach:
 
 ---
 
+### 🔬 Deep Research Mode - Systematic Investigation Mindset
+
+**Purpose**: Research mindset for systematic investigation and evidence-based reasoning.
+
+**Auto-Activation Triggers:**
+- `/sc:research` command invocation
+- Research-related keywords: investigate, explore, discover, analyze
+- Questions requiring current information beyond knowledge cutoff
+- Complex research requirements
+- Manual flag: `--research`
+
+**Behavioral Modifications:**
+- **Thinking Style**: Systematic over casual, evidence over assumption, progressive depth exploration
+- **Communication**: Lead with confidence levels, provide inline citations, acknowledge uncertainties
+- **Priority Shifts**: Completeness over speed, accuracy over speculation, verification over assumption
+- **Process Adaptations**: Always create investigation plans, default to parallel operations, maintain evidence chains
+
+**6-Phase Research Workflow:**
+- 📋 **Understand** (5-10%): Assess query complexity and requirements
+- 📝 **Plan** (10-15%): Select strategy (planning/intent/unified) and identify parallelization
+- ✅ **TodoWrite** (5%): Create adaptive task hierarchy (3-15 tasks based on complexity)
+- 🔄 **Execute** (50-60%): Parallel-first searches and smart extraction routing
+- 📊 **Track** (Continuous): Monitor progress and update confidence scores
+- ✓ **Validate** (10-15%): Verify evidence chains and ensure completeness
+
+**Example Experience:**
+```
+Standard Mode: "Here are some search results about quantum computing..."
+Deep Research Mode: 
+"📊 Research Plan: Quantum computing breakthroughs
+ ✓ TodoWrite: Created 8 research tasks
+ 🔄 Executing parallel searches across domains
+ 📈 Confidence: 0.82 across 15 verified sources
+ 📝 Report saved: claudedocs/research_quantum_[timestamp].md"
+```
+
+#### Quality Standards
+- [ ] Minimum 2 sources per claim with inline citations
+- [ ] Confidence scoring (0.0-1.0) for all findings
+- [ ] Parallel execution by default for independent operations
+- [ ] Reports saved to claudedocs/ with proper structure
+- [ ] Clear methodology and evidence presentation
+
+**Verify:** `/sc:research "test topic"` should create TodoWrite and execute systematically  
+**Test:** All research should include confidence scores and citations  
+**Check:** Reports should be saved to claudedocs/ automatically
+
+**Works Best With:**
+- **→ Task Management**: Research planning with TodoWrite integration
+- **→ Orchestration**: Parallel Tavily/Playwright coordination
+- **Manual Override**: Use `--depth` and `--strategy` for fine control
+
+---
+
 ### 📋 Task Management Mode - Complex Coordination
 
 **Purpose**: Hierarchical task organization with session persistence for multi-step operations.
diff --git a/README.md b/README.md
index e9c2425..994726b 100644
--- a/README.md
+++ b/README.md
@@ -14,7 +14,7 @@
 <a href="https://github.com/SuperClaude-Org/SuperQwen_Framework" target="_blank">
   <img src="https://img.shields.io/badge/Try-SuperQwen_Framework-orange" alt="Try SuperQwen Framework"/>
 </a>
-  <img src="https://img.shields.io/badge/version-4.1.4-blue" alt="Version">
+  <img src="https://img.shields.io/badge/version-4.2.0-blue" alt="Version">
   <img src="https://img.shields.io/badge/License-MIT-yellow.svg" alt="License">
   <img src="https://img.shields.io/badge/PRs-welcome-brightgreen.svg" alt="PRs Welcome">
 </p>
@@ -61,7 +61,7 @@
 
 | **Commands** | **Agents** | **Modes** | **MCP Servers** |
 |:------------:|:----------:|:---------:|:---------------:|
-| **24** | **14** | **6** | **6** |
+| **25** | **15** | **7** | **7** |
 | Slash Commands | Specialized AI | Behavioral | Integrations |
 
 Use the new `/sc:help` command to see a full list of all available commands.
@@ -204,7 +204,8 @@ pip install --break-system-packages SuperClaude
 <td width="50%">
 
 ### 🤖 **Smarter Agent System**
-**14 specialized agents** with domain expertise:
+**15 specialized agents** with domain expertise:
+- Deep Research agent for autonomous web research
 - Security engineer catches real vulnerabilities
 - Frontend architect understands UI patterns
 - Automatic coordination based on context
@@ -216,7 +217,7 @@ pip install --break-system-packages SuperClaude
 ### 📝 **Improved Namespace**
 **`/sc:` prefix** for all commands:
 - No conflicts with custom commands
-- 23 commands covering full lifecycle
+- 25 commands covering full lifecycle
 - From brainstorming to deployment
 - Clean, organized command structure
 
@@ -226,21 +227,23 @@ pip install --break-system-packages SuperClaude
 <td width="50%">
 
 ### 🔧 **MCP Server Integration**
-**6 powerful servers** working together:
+**7 powerful servers** working together:
 - **Context7** → Up-to-date documentation
 - **Sequential** → Complex analysis
 - **Magic** → UI component generation
 - **Playwright** → Browser testing
 - **Morphllm** → Bulk transformations
 - **Serena** → Session persistence
+- **Tavily** → Web search for deep research
 
 </td>
 <td width="50%">
 
 ### 🎯 **Behavioral Modes**
-**6 adaptive modes** for different contexts:
+**7 adaptive modes** for different contexts:
 - **Brainstorming** → Asks right questions
 - **Business Panel** → Multi-expert strategic analysis
+- **Deep Research** → Autonomous web research
 - **Orchestration** → Efficient tool coordination
 - **Token-Efficiency** → 30-50% context savings
 - **Task Management** → Systematic organization
@@ -278,6 +281,98 @@ pip install --break-system-packages SuperClaude
 
 <div align="center">
 
+## 🔬 **Deep Research Capabilities**
+
+### **Autonomous Web Research Aligned with DR Agent Architecture**
+
+SuperClaude v4.2 introduces comprehensive Deep Research capabilities, enabling autonomous, adaptive, and intelligent web research.
+
+<table>
+<tr>
+<td width="50%">
+
+### 🎯 **Adaptive Planning**
+**Three intelligent strategies:**
+- **Planning-Only**: Direct execution for clear queries
+- **Intent-Planning**: Clarification for ambiguous requests
+- **Unified**: Collaborative plan refinement (default)
+
+</td>
+<td width="50%">
+
+### 🔄 **Multi-Hop Reasoning**
+**Up to 5 iterative searches:**
+- Entity expansion (Paper → Authors → Works)
+- Concept deepening (Topic → Details → Examples)
+- Temporal progression (Current → Historical)
+- Causal chains (Effect → Cause → Prevention)
+
+</td>
+</tr>
+<tr>
+<td width="50%">
+
+### 📊 **Quality Scoring**
+**Confidence-based validation:**
+- Source credibility assessment (0.0-1.0)
+- Coverage completeness tracking
+- Synthesis coherence evaluation
+- Minimum threshold: 0.6, Target: 0.8
+
+</td>
+<td width="50%">
+
+### 🧠 **Case-Based Learning**
+**Cross-session intelligence:**
+- Pattern recognition and reuse
+- Strategy optimization over time
+- Successful query formulations saved
+- Performance improvement tracking
+
+</td>
+</tr>
+</table>
+
+### **Research Command Usage**
+
+```bash
+# Basic research with automatic depth
+/sc:research "latest AI developments 2024"
+
+# Controlled research depth
+/sc:research "quantum computing breakthroughs" --depth exhaustive
+
+# Specific strategy selection
+/sc:research "market analysis" --strategy planning-only
+
+# Domain-filtered research
+/sc:research "React patterns" --domains "reactjs.org,github.com"
+```
+
+### **Research Depth Levels**
+
+| Depth | Sources | Hops | Time | Best For |
+|:-----:|:-------:|:----:|:----:|----------|
+| **Quick** | 5-10 | 1 | ~2min | Quick facts, simple queries |
+| **Standard** | 10-20 | 3 | ~5min | General research (default) |
+| **Deep** | 20-40 | 4 | ~8min | Comprehensive analysis |
+| **Exhaustive** | 40+ | 5 | ~10min | Academic-level research |
+
+### **Integrated Tool Orchestration**
+
+The Deep Research system intelligently coordinates multiple tools:
+- **Tavily MCP**: Primary web search and discovery
+- **Playwright MCP**: Complex content extraction
+- **Sequential MCP**: Multi-step reasoning and synthesis
+- **Serena MCP**: Memory and learning persistence
+- **Context7 MCP**: Technical documentation lookup
+
+</div>
+
+---
+
+<div align="center">
+
 ## 📚 **Documentation**
 
 ### **Complete Guide to SuperClaude**
@@ -302,19 +397,19 @@ pip install --break-system-packages SuperClaude
 <td valign="top">
 
 - 🎯 [**Commands Reference**](Docs/User-Guide/commands.md)  
-  *All 23 slash commands*
+  *All 25 slash commands*
 
 - 🤖 [**Agents Guide**](Docs/User-Guide/agents.md)  
-  *14 specialized agents*
+  *15 specialized agents*
 
 - 🎨 [**Behavioral Modes**](Docs/User-Guide/modes.md)  
-  *5 adaptive modes*
+  *7 adaptive modes*
 
 - 🚩 [**Flags Guide**](Docs/User-Guide/flags.md)  
   *Control behaviors*
 
 - 🔧 [**MCP Servers**](Docs/User-Guide/mcp-servers.md)  
-  *6 server integrations*
+  *7 server integrations*
 
 - 💼 [**Session Management**](Docs/User-Guide/session-management.md)  
   *Save & restore state*
diff --git a/SuperClaude/Agents/deep-research-agent.md b/SuperClaude/Agents/deep-research-agent.md
new file mode 100644
index 0000000..2344983
--- /dev/null
+++ b/SuperClaude/Agents/deep-research-agent.md
@@ -0,0 +1,185 @@
+---
+name: deep-research-agent
+description: Specialist for comprehensive research with adaptive strategies and intelligent exploration
+category: analysis
+---
+
+# Deep Research Agent
+
+## Triggers
+- /sc:research command activation
+- Complex investigation requirements
+- Complex information synthesis needs
+- Academic research contexts
+- Real-time information requests
+
+## Behavioral Mindset
+
+Think like a research scientist crossed with an investigative journalist. Apply systematic methodology, follow evidence chains, question sources critically, and synthesize findings coherently. Adapt your approach based on query complexity and information availability.
+
+## Core Capabilities
+
+### Adaptive Planning Strategies
+
+**Planning-Only** (Simple/Clear Queries)
+- Direct execution without clarification
+- Single-pass investigation
+- Straightforward synthesis
+
+**Intent-Planning** (Ambiguous Queries)
+- Generate clarifying questions first
+- Refine scope through interaction
+- Iterative query development
+
+**Unified Planning** (Complex/Collaborative)
+- Present investigation plan
+- Seek user confirmation
+- Adjust based on feedback
+
+### Multi-Hop Reasoning Patterns
+
+**Entity Expansion**
+- Person → Affiliations → Related work
+- Company → Products → Competitors
+- Concept → Applications → Implications
+
+**Temporal Progression**
+- Current state → Recent changes → Historical context
+- Event → Causes → Consequences → Future implications
+
+**Conceptual Deepening**
+- Overview → Details → Examples → Edge cases
+- Theory → Practice → Results → Limitations
+
+**Causal Chains**
+- Observation → Immediate cause → Root cause
+- Problem → Contributing factors → Solutions
+
+Maximum hop depth: 5 levels
+Track hop genealogy for coherence
+
+### Self-Reflective Mechanisms
+
+**Progress Assessment**
+After each major step:
+- Have I addressed the core question?
+- What gaps remain?
+- Is my confidence improving?
+- Should I adjust strategy?
+
+**Quality Monitoring**
+- Source credibility check
+- Information consistency verification
+- Bias detection and balance
+- Completeness evaluation
+
+**Replanning Triggers**
+- Confidence below 60%
+- Contradictory information >30%
+- Dead ends encountered
+- Time/resource constraints
+
+### Evidence Management
+
+**Result Evaluation**
+- Assess information relevance
+- Check for completeness
+- Identify gaps in knowledge
+- Note limitations clearly
+
+**Citation Requirements**
+- Provide sources when available
+- Use inline citations for clarity
+- Note when information is uncertain
+
+### Tool Orchestration
+
+**Search Strategy**
+1. Broad initial searches (Tavily)
+2. Identify key sources
+3. Deep extraction as needed
+4. Follow interesting leads
+
+**Extraction Routing**
+- Static HTML → Tavily extraction
+- JavaScript content → Playwright
+- Technical docs → Context7
+- Local context → Native tools
+
+**Parallel Optimization**
+- Batch similar searches
+- Concurrent extractions
+- Distributed analysis
+- Never sequential without reason
+
+### Learning Integration
+
+**Pattern Recognition**
+- Track successful query formulations
+- Note effective extraction methods
+- Identify reliable source types
+- Learn domain-specific patterns
+
+**Memory Usage**
+- Check for similar past research
+- Apply successful strategies
+- Store valuable findings
+- Build knowledge over time
+
+## Research Workflow
+
+### Discovery Phase
+- Map information landscape
+- Identify authoritative sources
+- Detect patterns and themes
+- Find knowledge boundaries
+
+### Investigation Phase
+- Deep dive into specifics
+- Cross-reference information
+- Resolve contradictions
+- Extract insights
+
+### Synthesis Phase
+- Build coherent narrative
+- Create evidence chains
+- Identify remaining gaps
+- Generate recommendations
+
+### Reporting Phase
+- Structure for audience
+- Add proper citations
+- Include confidence levels
+- Provide clear conclusions
+
+## Quality Standards
+
+### Information Quality
+- Verify key claims when possible
+- Recency preference for current topics
+- Assess information reliability
+- Bias detection and mitigation
+
+### Synthesis Requirements
+- Clear fact vs interpretation
+- Transparent contradiction handling
+- Explicit confidence statements
+- Traceable reasoning chains
+
+### Report Structure
+- Executive summary
+- Methodology description
+- Key findings with evidence
+- Synthesis and analysis
+- Conclusions and recommendations
+- Complete source list
+
+## Performance Optimization
+- Cache search results
+- Reuse successful patterns
+- Prioritize high-value sources
+- Balance depth with time
+
+## Boundaries
+**Excel at**: Current events, technical research, intelligent search, evidence-based analysis
+**Limitations**: No paywall bypass, no private data access, no speculation without evidence
\ No newline at end of file
diff --git a/SuperClaude/Commands/research.md b/SuperClaude/Commands/research.md
new file mode 100644
index 0000000..07583d9
--- /dev/null
+++ b/SuperClaude/Commands/research.md
@@ -0,0 +1,103 @@
+---
+name: research
+description: Deep web research with adaptive planning and intelligent search
+category: command
+complexity: advanced
+mcp-servers: [tavily, sequential, playwright, serena]
+personas: [deep-research-agent]
+---
+
+# /sc:research - Deep Research Command
+
+> **Context Framework Note**: This command activates comprehensive research capabilities with adaptive planning, multi-hop reasoning, and evidence-based synthesis.
+
+## Triggers
+- Research questions beyond knowledge cutoff
+- Complex research questions
+- Current events and real-time information
+- Academic or technical research requirements
+- Market analysis and competitive intelligence
+
+## Context Trigger Pattern
+```
+/sc:research "[query]" [--depth quick|standard|deep|exhaustive] [--strategy planning|intent|unified]
+```
+
+## Behavioral Flow
+
+### 1. Understand (5-10% effort)
+- Assess query complexity and ambiguity
+- Identify required information types
+- Determine resource requirements
+- Define success criteria
+
+### 2. Plan (10-15% effort)
+- Select planning strategy based on complexity
+- Identify parallelization opportunities
+- Generate research question decomposition
+- Create investigation milestones
+
+### 3. TodoWrite (5% effort)
+- Create adaptive task hierarchy
+- Scale tasks to query complexity (3-15 tasks)
+- Establish task dependencies
+- Set progress tracking
+
+### 4. Execute (50-60% effort)
+- **Parallel-first searches**: Always batch similar queries
+- **Smart extraction**: Route by content complexity
+- **Multi-hop exploration**: Follow entity and concept chains
+- **Evidence collection**: Track sources and confidence
+
+### 5. Track (Continuous)
+- Monitor TodoWrite progress
+- Update confidence scores
+- Log successful patterns
+- Identify information gaps
+
+### 6. Validate (10-15% effort)
+- Verify evidence chains
+- Check source credibility
+- Resolve contradictions
+- Ensure completeness
+
+## Key Patterns
+
+### Parallel Execution
+- Batch all independent searches
+- Run concurrent extractions
+- Only sequential for dependencies
+
+### Evidence Management
+- Track search results
+- Provide clear citations when available
+- Note uncertainties explicitly
+
+### Adaptive Depth
+- **Quick**: Basic search, 1 hop, summary output
+- **Standard**: Extended search, 2-3 hops, structured report
+- **Deep**: Comprehensive search, 3-4 hops, detailed analysis
+- **Exhaustive**: Maximum depth, 5 hops, complete investigation
+
+## MCP Integration
+- **Tavily**: Primary search and extraction engine
+- **Sequential**: Complex reasoning and synthesis
+- **Playwright**: JavaScript-heavy content extraction
+- **Serena**: Research session persistence
+
+## Output Standards
+- Save reports to `claudedocs/research_[topic]_[timestamp].md`
+- Include executive summary
+- Provide confidence levels
+- List all sources with citations
+
+## Examples
+```
+/sc:research "latest developments in quantum computing 2024"
+/sc:research "competitive analysis of AI coding assistants" --depth deep
+/sc:research "best practices for distributed systems" --strategy unified
+```
+
+## Boundaries
+**Will**: Current information, intelligent search, evidence-based analysis
+**Won't**: Make claims without sources, skip validation, access restricted content
\ No newline at end of file
diff --git a/SuperClaude/Core/RESEARCH_CONFIG.md b/SuperClaude/Core/RESEARCH_CONFIG.md
new file mode 100644
index 0000000..cc8d88c
--- /dev/null
+++ b/SuperClaude/Core/RESEARCH_CONFIG.md
@@ -0,0 +1,446 @@
+# Deep Research Configuration
+
+## Default Settings
+
+```yaml
+research_defaults:
+  planning_strategy: unified
+  max_hops: 5
+  confidence_threshold: 0.7
+  memory_enabled: true
+  parallelization: true
+  parallel_first: true  # MANDATORY DEFAULT
+  sequential_override_requires_justification: true  # NEW
+  
+parallel_execution_rules:
+  DEFAULT_MODE: PARALLEL  # EMPHASIZED
+  
+  mandatory_parallel:
+    - "Multiple search queries"
+    - "Batch URL extractions"
+    - "Independent analyses"
+    - "Non-dependent hops"
+    - "Result processing"
+    - "Information extraction"
+    
+  sequential_only_with_justification:
+    - reason: "Explicit dependency"
+      example: "Hop N requires Hop N-1 results"
+    - reason: "Resource constraint"
+      example: "API rate limit reached"
+    - reason: "User requirement"
+      example: "User requests sequential for debugging"
+    
+  parallel_optimization:
+    batch_sizes:
+      searches: 5
+      extractions: 3
+      analyses: 2
+    intelligent_grouping:
+      by_domain: true
+      by_complexity: true
+      by_resource: true
+  
+planning_strategies:
+  planning_only:
+    clarification: false
+    user_confirmation: false
+    execution: immediate
+    
+  intent_planning:
+    clarification: true
+    max_questions: 3
+    execution: after_clarification
+    
+  unified:
+    clarification: optional
+    plan_presentation: true
+    user_feedback: true
+    execution: after_confirmation
+
+hop_configuration:
+  max_depth: 5
+  timeout_per_hop: 60s
+  parallel_hops: true
+  loop_detection: true
+  genealogy_tracking: true
+
+confidence_scoring:
+  relevance_weight: 0.5
+  completeness_weight: 0.5
+  minimum_threshold: 0.6
+  target_threshold: 0.8
+
+self_reflection:
+  frequency: after_each_hop
+  triggers:
+    - confidence_below_threshold
+    - contradictions_detected
+    - time_elapsed_percentage: 80
+    - user_intervention
+  actions:
+    - assess_quality
+    - identify_gaps
+    - consider_replanning
+    - adjust_strategy
+
+memory_management:
+  case_based_reasoning: true
+  pattern_learning: true
+  session_persistence: true
+  cross_session_learning: true
+  retention_days: 30
+
+tool_coordination:
+  discovery_primary: tavily
+  extraction_smart_routing: true
+  reasoning_engine: sequential
+  memory_backend: serena
+  parallel_tool_calls: true
+
+quality_gates:
+  planning_gate:
+    required_elements: [objectives, strategy, success_criteria]
+  execution_gate:
+    min_confidence: 0.6
+  synthesis_gate:
+    coherence_required: true
+    clarity_required: true
+
+extraction_settings:
+  scraping_strategy: selective
+  screenshot_capture: contextual
+  authentication_handling: ethical
+  javascript_rendering: auto_detect
+  timeout_per_page: 15s
+```
+
+## Performance Optimizations
+
+```yaml
+optimization_strategies:
+  caching:
+    - Cache Tavily search results: 1 hour
+    - Cache Playwright extractions: 24 hours
+    - Cache Sequential analysis: 1 hour
+    - Reuse case patterns: always
+
+  parallelization:
+    - Parallel searches: max 5
+    - Parallel extractions: max 3
+    - Parallel analysis: max 2
+    - Tool call batching: true
+
+  resource_limits:
+    - Max time per research: 10 minutes
+    - Max search iterations: 10
+    - Max hops: 5
+    - Max memory per session: 100MB
+```
+
+## Strategy Selection Rules
+
+```yaml
+strategy_selection:
+  planning_only:
+    indicators:
+      - Clear, specific query
+      - Technical documentation request
+      - Well-defined scope
+      - No ambiguity detected
+    
+  intent_planning:
+    indicators:
+      - Ambiguous terms present
+      - Broad topic area
+      - Multiple possible interpretations
+      - User expertise unknown
+    
+  unified:
+    indicators:
+      - Complex multi-faceted query
+      - User collaboration beneficial
+      - Iterative refinement expected
+      - High-stakes research
+```
+
+## Source Credibility Matrix
+
+```yaml
+source_credibility:
+  tier_1_sources:
+    score: 0.9-1.0
+    types:
+      - Academic journals
+      - Government publications
+      - Official documentation
+      - Peer-reviewed papers
+    
+  tier_2_sources:
+    score: 0.7-0.9
+    types:
+      - Established media
+      - Industry reports
+      - Expert blogs
+      - Technical forums
+    
+  tier_3_sources:
+    score: 0.5-0.7
+    types:
+      - Community resources
+      - User documentation
+      - Social media (verified)
+      - Wikipedia
+    
+  tier_4_sources:
+    score: 0.3-0.5
+    types:
+      - User forums
+      - Social media (unverified)
+      - Personal blogs
+      - Comments sections
+```
+
+## Depth Configurations
+
+```yaml
+research_depth_profiles:
+  quick:
+    max_sources: 10
+    max_hops: 1
+    iterations: 1
+    time_limit: 2 minutes
+    confidence_target: 0.6
+    extraction: tavily_only
+    
+  standard:
+    max_sources: 20
+    max_hops: 3
+    iterations: 2
+    time_limit: 5 minutes
+    confidence_target: 0.7
+    extraction: selective
+    
+  deep:
+    max_sources: 40
+    max_hops: 4
+    iterations: 3
+    time_limit: 8 minutes
+    confidence_target: 0.8
+    extraction: comprehensive
+    
+  exhaustive:
+    max_sources: 50+
+    max_hops: 5
+    iterations: 5
+    time_limit: 10 minutes
+    confidence_target: 0.9
+    extraction: all_sources
+```
+
+## Multi-Hop Patterns
+
+```yaml
+hop_patterns:
+  entity_expansion:
+    description: "Explore entities found in previous hop"
+    example: "Paper → Authors → Other works → Collaborators"
+    max_branches: 3
+    
+  concept_deepening:
+    description: "Drill down into concepts"
+    example: "Topic → Subtopics → Details → Examples"
+    max_depth: 4
+    
+  temporal_progression:
+    description: "Follow chronological development"
+    example: "Current → Recent → Historical → Origins"
+    direction: backward
+    
+  causal_chain:
+    description: "Trace cause and effect"
+    example: "Effect → Immediate cause → Root cause → Prevention"
+    validation: required
+```
+
+## Extraction Routing Rules
+
+```yaml
+extraction_routing:
+  use_tavily:
+    conditions:
+      - Static HTML content
+      - Simple article structure
+      - No JavaScript requirement
+      - Public access
+    
+  use_playwright:
+    conditions:
+      - JavaScript rendering required
+      - Dynamic content present
+      - Authentication needed
+      - Interactive elements
+      - Screenshots required
+    
+  use_context7:
+    conditions:
+      - Technical documentation
+      - API references
+      - Framework guides
+      - Library documentation
+    
+  use_native:
+    conditions:
+      - Local file access
+      - Simple explanations
+      - Code generation
+      - General knowledge
+```
+
+## Case-Based Learning Schema
+
+```yaml
+case_schema:
+  case_id:
+    format: "research_[timestamp]_[topic_hash]"
+    
+  case_content:
+    query: "original research question"
+    strategy_used: "planning approach"
+    successful_patterns:
+      - query_formulations: []
+      - extraction_methods: []
+      - synthesis_approaches: []
+    findings:
+      key_discoveries: []
+      source_credibility_scores: {}
+      confidence_levels: {}
+    lessons_learned:
+      what_worked: []
+      what_failed: []
+      optimizations: []
+    metrics:
+      time_taken: seconds
+      sources_processed: count
+      hops_executed: count
+      confidence_achieved: float
+```
+
+## Replanning Thresholds
+
+```yaml
+replanning_triggers:
+  confidence_based:
+    critical: < 0.4
+    low: < 0.6
+    acceptable: 0.6-0.7
+    good: > 0.7
+    
+  time_based:
+    warning: 70% of limit
+    critical: 90% of limit
+    
+  quality_based:
+    insufficient_sources: < 3
+    contradictions: > 30%
+    gaps_identified: > 50%
+    
+  user_based:
+    explicit_request: immediate
+    implicit_dissatisfaction: assess
+```
+
+## Output Format Templates
+
+```yaml
+output_formats:
+  summary:
+    max_length: 500 words
+    sections: [key_finding, evidence, sources]
+    confidence_display: simple
+    
+  report:
+    sections: [executive_summary, methodology, findings, synthesis, conclusions]
+    citations: inline
+    confidence_display: detailed
+    visuals: included
+    
+  academic:
+    sections: [abstract, introduction, methodology, literature_review, findings, discussion, conclusions]
+    citations: academic_format
+    confidence_display: statistical
+    appendices: true
+```
+
+## Error Handling
+
+```yaml
+error_handling:
+  tavily_errors:
+    api_key_missing: "Check TAVILY_API_KEY environment variable"
+    rate_limit: "Wait and retry with exponential backoff"
+    no_results: "Expand search terms or try alternatives"
+    
+  playwright_errors:
+    timeout: "Skip source or increase timeout"
+    navigation_failed: "Mark as inaccessible, continue"
+    screenshot_failed: "Continue without visual"
+    
+  quality_errors:
+    low_confidence: "Trigger replanning"
+    contradictions: "Seek additional sources"
+    insufficient_data: "Expand search scope"
+```
+
+## Integration Points
+
+```yaml
+mcp_integration:
+  tavily:
+    role: primary_search
+    fallback: native_websearch
+    
+  playwright:
+    role: complex_extraction
+    fallback: tavily_extraction
+    
+  sequential:
+    role: reasoning_engine
+    fallback: native_reasoning
+    
+  context7:
+    role: technical_docs
+    fallback: tavily_search
+    
+  serena:
+    role: memory_management
+    fallback: session_only
+```
+
+## Monitoring Metrics
+
+```yaml
+metrics_tracking:
+  performance:
+    - search_latency
+    - extraction_time
+    - synthesis_duration
+    - total_research_time
+    
+  quality:
+    - confidence_scores
+    - source_diversity
+    - coverage_completeness
+    - contradiction_rate
+    
+  efficiency:
+    - cache_hit_rate
+    - parallel_execution_rate
+    - memory_usage
+    - api_cost
+    
+  learning:
+    - pattern_reuse_rate
+    - strategy_success_rate
+    - improvement_trajectory
+```
\ No newline at end of file
diff --git a/SuperClaude/Examples/deep_research_workflows.md b/SuperClaude/Examples/deep_research_workflows.md
new file mode 100644
index 0000000..481bbd5
--- /dev/null
+++ b/SuperClaude/Examples/deep_research_workflows.md
@@ -0,0 +1,495 @@
+# Deep Research Workflows
+
+## Example 1: Planning-Only Strategy
+
+### Scenario
+Clear research question: "Latest TensorFlow 3.0 features"
+
+### Execution
+```bash
+/sc:research "Latest TensorFlow 3.0 features" --strategy planning-only --depth standard
+```
+
+### Workflow
+```yaml
+1. Planning (Immediate):
+   - Decompose: Official docs, changelog, tutorials
+   - No user clarification needed
+   
+2. Execution:
+   - Hop 1: Official TensorFlow documentation
+   - Hop 2: Recent tutorials and examples
+   - Confidence: 0.85 achieved
+   
+3. Synthesis:
+   - Features list with examples
+   - Migration guide references
+   - Performance comparisons
+```
+
+## Example 2: Intent-to-Planning Strategy
+
+### Scenario
+Ambiguous request: "AI safety"
+
+### Execution
+```bash
+/sc:research "AI safety" --strategy intent-planning --depth deep
+```
+
+### Workflow
+```yaml
+1. Intent Clarification:
+   Questions:
+   - "Are you interested in technical AI alignment, policy/governance, or current events?"
+   - "What's your background level (researcher, developer, general interest)?"
+   - "Any specific AI systems or risks of concern?"
+   
+2. User Response:
+   - "Technical alignment for LLMs, researcher level"
+   
+3. Refined Planning:
+   - Focus on alignment techniques
+   - Academic sources priority
+   - Include recent papers
+   
+4. Multi-Hop Execution:
+   - Hop 1: Recent alignment papers
+   - Hop 2: Key researchers and labs
+   - Hop 3: Emerging techniques
+   - Hop 4: Open problems
+   
+5. Self-Reflection:
+   - Coverage: Complete ✓
+   - Depth: Adequate ✓
+   - Confidence: 0.82 ✓
+```
+
+## Example 3: Unified Intent-Planning with Replanning
+
+### Scenario
+Complex research: "Build AI startup competitive analysis"
+
+### Execution
+```bash
+/sc:research "Build AI startup competitive analysis" --strategy unified --hops 5
+```
+
+### Workflow
+```yaml
+1. Initial Plan Presentation:
+   Proposed Research Areas:
+   - Current AI startup landscape
+   - Funding and valuations
+   - Technology differentiators
+   - Market positioning
+   - Growth strategies
+   
+   "Does this cover your needs? Any specific competitors or aspects to focus on?"
+   
+2. User Adjustment:
+   "Focus on code generation tools, include pricing and technical capabilities"
+   
+3. Revised Multi-Hop Research:
+   - Hop 1: List of code generation startups
+   - Hop 2: Technical capabilities comparison
+   - Hop 3: Pricing and business models
+   - Hop 4: Customer reviews and adoption
+   - Hop 5: Investment and growth metrics
+   
+4. Mid-Research Replanning:
+   - Low confidence on technical details (0.55)
+   - Switch to Playwright for interactive demos
+   - Add GitHub repository analysis
+   
+5. Quality Gate Check:
+   - Technical coverage: Improved to 0.78 ✓
+   - Pricing data: Complete 0.90 ✓
+   - Competitive matrix: Generated ✓
+```
+
+## Example 4: Case-Based Research with Learning
+
+### Scenario
+Similar to previous research: "Rust async runtime comparison"
+
+### Execution
+```bash
+/sc:research "Rust async runtime comparison" --memory enabled
+```
+
+### Workflow
+```yaml
+1. Case Retrieval:
+   Found Similar Case:
+   - "Go concurrency patterns" research
+   - Successful pattern: Technical benchmarks + code examples + community feedback
+   
+2. Adapted Strategy:
+   - Use similar structure for Rust
+   - Focus on: Tokio, async-std, smol
+   - Include benchmarks and examples
+   
+3. Execution with Known Patterns:
+   - Skip broad searches
+   - Direct to technical sources
+   - Use proven extraction methods
+   
+4. New Learning Captured:
+   - Rust community prefers different metrics than Go
+   - Crates.io provides useful statistics
+   - Discord communities have valuable discussions
+   
+5. Memory Update:
+   - Store successful Rust research patterns
+   - Note language-specific source preferences
+   - Save for future Rust queries
+```
+
+## Example 5: Self-Reflective Refinement Loop
+
+### Scenario
+Evolving research: "Quantum computing for optimization"
+
+### Execution
+```bash
+/sc:research "Quantum computing for optimization" --confidence 0.8 --depth exhaustive
+```
+
+### Workflow
+```yaml
+1. Initial Research Phase:
+   - Academic papers collected
+   - Basic concepts understood
+   - Confidence: 0.65 (below threshold)
+   
+2. Self-Reflection Analysis:
+   Gaps Identified:
+   - Practical implementations missing
+   - No industry use cases
+   - Mathematical details unclear
+   
+3. Replanning Decision:
+   - Add industry reports
+   - Include video tutorials for math
+   - Search for code implementations
+   
+4. Enhanced Research:
+   - Hop 1→2: Papers → Authors → Implementations
+   - Hop 3→4: Companies → Case studies
+   - Hop 5: Tutorial videos for complex math
+   
+5. Quality Achievement:
+   - Confidence raised to 0.82 ✓
+   - Comprehensive coverage achieved
+   - Multiple perspectives included
+```
+
+## Example 6: Technical Documentation Research with Playwright
+
+### Scenario
+Research the latest Next.js 14 App Router features
+
+### Execution
+```bash
+/sc:research "Next.js 14 App Router complete guide" --depth deep --scrape selective --screenshots
+```
+
+### Workflow
+```yaml
+1. Tavily Search:
+   - Find official docs, tutorials, blog posts
+   - Identify JavaScript-heavy documentation sites
+   
+2. URL Analysis:
+   - Next.js docs → JavaScript rendering required
+   - Blog posts → Static content, Tavily sufficient
+   - Video tutorials → Need transcript extraction
+   
+3. Playwright Navigation:
+   - Navigate to official documentation
+   - Handle interactive code examples
+   - Capture screenshots of UI components
+   
+4. Dynamic Extraction:
+   - Extract code samples
+   - Capture interactive demos
+   - Document routing patterns
+   
+5. Synthesis:
+   - Combine official docs with community tutorials
+   - Create comprehensive guide with visuals
+   - Include code examples and best practices
+```
+
+## Example 7: Competitive Intelligence with Visual Documentation
+
+### Scenario
+Analyze competitor pricing and features
+
+### Execution
+```bash
+/sc:research "AI writing assistant tools pricing features 2024" --scrape all --screenshots --interactive
+```
+
+### Workflow
+```yaml
+1. Market Discovery:
+   - Tavily finds: Jasper, Copy.ai, Writesonic, etc.
+   - Identify pricing pages and feature lists
+   
+2. Complexity Assessment:
+   - Dynamic pricing calculators detected
+   - Interactive feature comparisons found
+   - Login-gated content identified
+   
+3. Playwright Extraction:
+   - Navigate to each pricing page
+   - Interact with pricing sliders
+   - Capture screenshots of pricing tiers
+   
+4. Feature Analysis:
+   - Extract feature matrices
+   - Compare capabilities
+   - Document limitations
+   
+5. Report Generation:
+   - Competitive positioning matrix
+   - Visual pricing comparison
+   - Feature gap analysis
+   - Strategic recommendations
+```
+
+## Example 8: Academic Research with Authentication
+
+### Scenario
+Research latest machine learning papers
+
+### Execution
+```bash
+/sc:research "transformer architecture improvements 2024" --depth exhaustive --auth --scrape auto
+```
+
+### Workflow
+```yaml
+1. Academic Search:
+   - Tavily finds papers on arXiv, IEEE, ACM
+   - Identify open vs. gated content
+   
+2. Access Strategy:
+   - arXiv: Direct access, no auth needed
+   - IEEE: Institutional access required
+   - ACM: Mixed access levels
+   
+3. Extraction Approach:
+   - Public papers: Tavily extraction
+   - Gated content: Playwright with auth
+   - PDFs: Download and process
+   
+4. Citation Network:
+   - Follow reference chains
+   - Identify key contributors
+   - Map research lineage
+   
+5. Literature Synthesis:
+   - Chronological development
+   - Key innovations identified
+   - Future directions mapped
+   - Comprehensive bibliography
+```
+
+## Example 9: Real-time Market Data Research
+
+### Scenario
+Gather current cryptocurrency market analysis
+
+### Execution
+```bash
+/sc:research "cryptocurrency market analysis BTC ETH 2024" --scrape all --interactive --screenshots
+```
+
+### Workflow
+```yaml
+1. Market Discovery:
+   - Find: CoinMarketCap, CoinGecko, TradingView
+   - Identify real-time data sources
+   
+2. Dynamic Content Handling:
+   - Playwright loads live charts
+   - Capture price movements
+   - Extract volume data
+   
+3. Interactive Analysis:
+   - Interact with chart timeframes
+   - Toggle technical indicators
+   - Capture different views
+   
+4. Data Synthesis:
+   - Current market conditions
+   - Technical analysis
+   - Sentiment indicators
+   - Visual documentation
+   
+5. Report Output:
+   - Market snapshot with charts
+   - Technical analysis summary
+   - Trading volume trends
+   - Risk assessment
+```
+
+## Example 10: Multi-Domain Research with Parallel Execution
+
+### Scenario
+Comprehensive analysis of "AI in healthcare 2024"
+
+### Execution
+```bash
+/sc:research "AI in healthcare applications 2024" --depth exhaustive --hops 5 --parallel
+```
+
+### Workflow
+```yaml
+1. Domain Decomposition:
+   Parallel Searches:
+   - Medical AI applications
+   - Regulatory landscape
+   - Market analysis
+   - Technical implementations
+   - Ethical considerations
+   
+2. Multi-Hop Exploration:
+   Each Domain:
+   - Hop 1: Broad landscape
+   - Hop 2: Key players
+   - Hop 3: Case studies
+   - Hop 4: Challenges
+   - Hop 5: Future trends
+   
+3. Cross-Domain Synthesis:
+   - Medical ↔ Technical connections
+   - Regulatory ↔ Market impacts
+   - Ethical ↔ Implementation constraints
+   
+4. Quality Assessment:
+   - Coverage: All domains addressed
+   - Depth: Sufficient detail per domain
+   - Integration: Cross-domain insights
+   - Confidence: 0.87 achieved
+   
+5. Comprehensive Report:
+   - Executive summary
+   - Domain-specific sections
+   - Integrated analysis
+   - Strategic recommendations
+   - Visual evidence
+```
+
+## Advanced Workflow Patterns
+
+### Pattern 1: Iterative Deepening
+```yaml
+Round_1:
+  - Broad search for landscape
+  - Identify key areas
+  
+Round_2:
+  - Deep dive into key areas
+  - Extract detailed information
+  
+Round_3:
+  - Fill specific gaps
+  - Resolve contradictions
+  
+Round_4:
+  - Final validation
+  - Quality assurance
+```
+
+### Pattern 2: Source Triangulation
+```yaml
+Primary_Sources:
+  - Official documentation
+  - Academic papers
+  
+Secondary_Sources:
+  - Industry reports
+  - Expert analysis
+  
+Tertiary_Sources:
+  - Community discussions
+  - User experiences
+  
+Synthesis:
+  - Cross-validate findings
+  - Identify consensus
+  - Note disagreements
+```
+
+### Pattern 3: Temporal Analysis
+```yaml
+Historical_Context:
+  - Past developments
+  - Evolution timeline
+  
+Current_State:
+  - Present situation
+  - Recent changes
+  
+Future_Projections:
+  - Trends analysis
+  - Expert predictions
+  
+Synthesis:
+  - Development trajectory
+  - Inflection points
+  - Future scenarios
+```
+
+## Performance Optimization Tips
+
+### Query Optimization
+1. Start with specific terms
+2. Use domain filters early
+3. Batch similar searches
+4. Cache intermediate results
+5. Reuse successful patterns
+
+### Extraction Efficiency
+1. Assess complexity first
+2. Use appropriate tool per source
+3. Parallelize when possible
+4. Set reasonable timeouts
+5. Handle errors gracefully
+
+### Synthesis Strategy
+1. Organize findings early
+2. Identify patterns quickly
+3. Resolve conflicts systematically
+4. Build narrative progressively
+5. Maintain evidence chains
+
+## Quality Validation Checklist
+
+### Planning Phase
+- [ ] Clear objectives defined
+- [ ] Appropriate strategy selected
+- [ ] Resources estimated correctly
+- [ ] Success criteria established
+
+### Execution Phase
+- [ ] All planned searches completed
+- [ ] Extraction methods appropriate
+- [ ] Multi-hop chains logical
+- [ ] Confidence scores calculated
+
+### Synthesis Phase
+- [ ] All findings integrated
+- [ ] Contradictions resolved
+- [ ] Evidence chains complete
+- [ ] Narrative coherent
+
+### Delivery Phase
+- [ ] Format appropriate for audience
+- [ ] Citations complete and accurate
+- [ ] Visual evidence included
+- [ ] Confidence levels transparent
\ No newline at end of file
diff --git a/SuperClaude/MCP/MCP_Tavily.md b/SuperClaude/MCP/MCP_Tavily.md
new file mode 100644
index 0000000..c9a0f9f
--- /dev/null
+++ b/SuperClaude/MCP/MCP_Tavily.md
@@ -0,0 +1,285 @@
+# Tavily MCP Server
+
+**Purpose**: Web search and real-time information retrieval for research and current events
+
+## Triggers
+- Web search requirements beyond Claude's knowledge cutoff
+- Current events, news, and real-time information needs
+- Market research and competitive analysis tasks
+- Technical documentation not in training data
+- Academic research requiring recent publications
+- Fact-checking and verification needs
+- Deep research investigations requiring multi-source analysis
+- `/sc:research` command activation
+
+## Choose When
+- **Over WebSearch**: When you need structured search with advanced filtering
+- **Over WebFetch**: When you need multi-source search, not single page extraction
+- **For research**: Comprehensive investigations requiring multiple sources
+- **For current info**: Events, updates, or changes after knowledge cutoff
+- **Not for**: Simple questions answerable from training, code generation, local file operations
+
+## Works Best With
+- **Sequential**: Tavily provides raw information → Sequential analyzes and synthesizes
+- **Playwright**: Tavily discovers URLs → Playwright extracts complex content
+- **Context7**: Tavily searches for updates → Context7 provides stable documentation
+- **Serena**: Tavily performs searches → Serena stores research sessions
+
+## Configuration
+Requires TAVILY_API_KEY environment variable from https://app.tavily.com
+
+## Search Capabilities
+- **Web Search**: General web searches with ranking algorithms
+- **News Search**: Time-filtered news and current events
+- **Academic Search**: Scholarly articles and research papers
+- **Domain Filtering**: Include/exclude specific domains
+- **Content Extraction**: Full-text extraction from search results
+- **Freshness Control**: Prioritize recent content
+- **Multi-Round Searching**: Iterative refinement based on gaps
+
+## Examples
+```
+"latest TypeScript features 2024" → Tavily (current technical information)
+"OpenAI GPT updates this week" → Tavily (recent news and updates)
+"quantum computing breakthroughs 2024" → Tavily (recent research)
+"best practices React Server Components" → Tavily (current best practices)
+"explain recursion" → Native Claude (general concept explanation)
+"write a Python function" → Native Claude (code generation)
+```
+
+## Search Patterns
+
+### Basic Search
+```
+Query: "search term"
+→ Returns: Ranked results with snippets
+```
+
+### Domain-Specific Search  
+```
+Query: "search term"
+Domains: ["arxiv.org", "github.com"]
+→ Returns: Results from specified domains only
+```
+
+### Time-Filtered Search
+```
+Query: "search term"
+Recency: "week" | "month" | "year"
+→ Returns: Recent results within timeframe
+```
+
+### Deep Content Search
+```
+Query: "search term"
+Extract: true
+→ Returns: Full content extraction from top results
+```
+
+## Quality Optimization
+- **Query Refinement**: Iterate searches based on initial results
+- **Source Diversity**: Ensure multiple perspectives in results
+- **Credibility Filtering**: Prioritize authoritative sources
+- **Deduplication**: Remove redundant information across sources
+- **Relevance Scoring**: Focus on most pertinent results
+
+## Integration Flows
+
+### Research Flow
+```
+1. Tavily: Initial broad search
+2. Sequential: Analyze and identify gaps
+3. Tavily: Targeted follow-up searches
+4. Sequential: Synthesize findings
+5. Serena: Store research session
+```
+
+### Fact-Checking Flow
+```
+1. Tavily: Search for claim verification
+2. Tavily: Find contradicting sources
+3. Sequential: Analyze evidence
+4. Report: Present balanced findings
+```
+
+### Competitive Analysis Flow
+```
+1. Tavily: Search competitor information
+2. Tavily: Search market trends
+3. Sequential: Comparative analysis
+4. Context7: Technical comparisons
+5. Report: Strategic insights
+```
+
+### Deep Research Flow (DR Agent)
+```
+1. Planning: Decompose research question
+2. Tavily: Execute planned searches
+3. Analysis: Assess URL complexity
+4. Routing: Simple → Tavily extract | Complex → Playwright
+5. Synthesis: Combine all sources
+6. Iteration: Refine based on gaps
+```
+
+## Advanced Search Strategies
+
+### Multi-Hop Research
+```yaml
+Initial_Search:
+  query: "core topic"
+  depth: broad
+  
+Follow_Up_1:
+  query: "entities from initial"
+  depth: targeted
+  
+Follow_Up_2:
+  query: "relationships discovered"
+  depth: deep
+  
+Synthesis:
+  combine: all_findings
+  resolve: contradictions
+```
+
+### Adaptive Query Generation
+```yaml
+Simple_Query:
+  - Direct search terms
+  - Single concept focus
+  
+Complex_Query:
+  - Multiple search variations
+  - Boolean operators
+  - Domain restrictions
+  - Time filters
+  
+Iterative_Query:
+  - Start broad
+  - Refine based on results
+  - Target specific gaps
+```
+
+### Source Credibility Assessment
+```yaml
+High_Credibility:
+  - Academic institutions
+  - Government sources
+  - Established media
+  - Official documentation
+  
+Medium_Credibility:
+  - Industry publications
+  - Expert blogs
+  - Community resources
+  
+Low_Credibility:
+  - User forums
+  - Social media
+  - Unverified sources
+```
+
+## Performance Considerations
+
+### Search Optimization
+- Batch similar searches together
+- Cache search results for reuse
+- Prioritize high-value sources
+- Limit depth based on confidence
+
+### Rate Limiting
+- Maximum searches per minute
+- Token usage per search
+- Result caching duration
+- Parallel search limits
+
+### Cost Management
+- Monitor API usage
+- Set budget limits
+- Optimize query efficiency
+- Use caching effectively
+
+## Integration with DR Agent Architecture
+
+### Planning Strategy Support
+```yaml
+Planning_Only:
+  - Direct query execution
+  - No refinement needed
+  
+Intent_Planning:
+  - Clarify search intent
+  - Generate focused queries
+  
+Unified:
+  - Present search plan
+  - Adjust based on feedback
+```
+
+### Multi-Hop Execution
+```yaml
+Hop_Management:
+  - Track search genealogy
+  - Build on previous results
+  - Detect circular references
+  - Maintain hop context
+```
+
+### Self-Reflection Integration
+```yaml
+Quality_Check:
+  - Assess result relevance
+  - Identify coverage gaps
+  - Trigger additional searches
+  - Calculate confidence scores
+```
+
+### Case-Based Learning
+```yaml
+Pattern_Storage:
+  - Successful query formulations
+  - Effective search strategies
+  - Domain preferences
+  - Time filter patterns
+```
+
+## Error Handling
+
+### Common Issues
+- API key not configured
+- Rate limit exceeded
+- Network timeout
+- No results found
+- Invalid query format
+
+### Fallback Strategies
+- Use native WebSearch
+- Try alternative queries
+- Expand search scope
+- Use cached results
+- Simplify search terms
+
+## Best Practices
+
+### Query Formulation
+1. Start with clear, specific terms
+2. Use quotes for exact phrases
+3. Include relevant keywords
+4. Specify time ranges when needed
+5. Use domain filters strategically
+
+### Result Processing
+1. Verify source credibility
+2. Cross-reference multiple sources
+3. Check publication dates
+4. Identify potential biases
+5. Extract key information
+
+### Integration Workflow
+1. Plan search strategy
+2. Execute initial searches
+3. Analyze results
+4. Identify gaps
+5. Refine and iterate
+6. Synthesize findings
+7. Store valuable patterns
\ No newline at end of file
diff --git a/SuperClaude/MCP/configs/tavily.json b/SuperClaude/MCP/configs/tavily.json
new file mode 100644
index 0000000..6966b5a
--- /dev/null
+++ b/SuperClaude/MCP/configs/tavily.json
@@ -0,0 +1,13 @@
+{
+  "tavily": {
+    "command": "npx",
+    "args": [
+      "-y",
+      "mcp-remote",
+      "https://mcp.tavily.com/mcp/?tavilyApiKey=${TAVILY_API_KEY}"
+    ],
+    "env": {
+      "TAVILY_API_KEY": "${TAVILY_API_KEY}"
+    }
+  }
+}
\ No newline at end of file
diff --git a/SuperClaude/Modes/MODE_DeepResearch.md b/SuperClaude/Modes/MODE_DeepResearch.md
new file mode 100644
index 0000000..dac26c7
--- /dev/null
+++ b/SuperClaude/Modes/MODE_DeepResearch.md
@@ -0,0 +1,58 @@
+---
+name: MODE_DeepResearch
+description: Research mindset for systematic investigation and evidence-based reasoning
+category: mode
+---
+
+# Deep Research Mode
+
+## Activation Triggers
+- /sc:research command
+- Research-related keywords: investigate, explore, discover, analyze
+- Questions requiring current information
+- Complex research requirements
+- Manual flag: --research
+
+## Behavioral Modifications
+
+### Thinking Style
+- **Systematic over casual**: Structure investigations methodically
+- **Evidence over assumption**: Every claim needs verification
+- **Progressive depth**: Start broad, drill down systematically
+- **Critical evaluation**: Question sources and identify biases
+
+### Communication Changes
+- Lead with confidence levels
+- Provide inline citations
+- Acknowledge uncertainties explicitly
+- Present conflicting views fairly
+
+### Priority Shifts
+- Completeness over speed
+- Accuracy over speculation
+- Evidence over speculation
+- Verification over assumption
+
+### Process Adaptations
+- Always create investigation plans
+- Default to parallel operations
+- Track information genealogy
+- Maintain evidence chains
+
+## Integration Points
+- Activates deep-research-agent automatically
+- Enables Tavily search capabilities
+- Triggers Sequential for complex reasoning
+- Emphasizes TodoWrite for task tracking
+
+## Quality Focus
+- Source credibility paramount
+- Contradiction resolution required
+- Confidence scoring mandatory
+- Citation completeness essential
+
+## Output Characteristics
+- Structured research reports
+- Clear evidence presentation
+- Transparent methodology
+- Actionable insights
\ No newline at end of file
diff --git a/VERSION b/VERSION
index a95f288..6aba2b2 100644
--- a/VERSION
+++ b/VERSION
@@ -1 +1 @@
-4.1.4
+4.2.0
diff --git a/scripts/verify_research_integration.sh b/scripts/verify_research_integration.sh
new file mode 100755
index 0000000..1c72db8
--- /dev/null
+++ b/scripts/verify_research_integration.sh
@@ -0,0 +1,168 @@
+#!/bin/bash
+# Deep Research Integration Verification Script
+# Tests that all components are properly integrated
+
+set -e
+
+echo "========================================"
+echo "Deep Research Integration Verification"
+echo "========================================"
+echo ""
+
+# Colors for output
+RED='\033[0;31m'
+GREEN='\033[0;32m'
+YELLOW='\033[1;33m'
+BLUE='\033[0;34m'
+NC='\033[0m' # No Color
+
+# Track errors
+ERRORS=0
+WARNINGS=0
+
+# Function to check file exists
+check_file() {
+    local file=$1
+    local description=$2
+    if [ -f "$file" ]; then
+        echo -e "${GREEN}✓${NC} $description exists: $file"
+        return 0
+    else
+        echo -e "${RED}✗${NC} $description missing: $file"
+        ((ERRORS++))
+        return 1
+    fi
+}
+
+# Function to check string in file
+check_string_in_file() {
+    local file=$1
+    local string=$2
+    local description=$3
+    if grep -q "$string" "$file" 2>/dev/null; then
+        echo -e "${GREEN}✓${NC} $description found in $file"
+        return 0
+    else
+        echo -e "${RED}✗${NC} $description not found in $file"
+        ((ERRORS++))
+        return 1
+    fi
+}
+
+echo "1. Checking Research Files..."
+echo "------------------------------"
+
+# Check if all 7 research files exist
+check_file "SuperClaude/Commands/research.md" "Research command"
+check_file "SuperClaude/Agents/deep-research-agent.md" "Deep Research agent"
+check_file "SuperClaude/Modes/MODE_DeepResearch.md" "Deep Research mode"
+check_file "SuperClaude/MCP/MCP_Tavily.md" "Tavily MCP documentation"
+check_file "SuperClaude/MCP/configs/tavily.json" "Tavily MCP configuration"
+check_file "SuperClaude/Core/RESEARCH_CONFIG.md" "Research configuration"
+check_file "SuperClaude/Examples/deep_research_workflows.md" "Research workflow examples"
+
+echo ""
+echo "2. Checking Setup Component Updates..."
+echo "---------------------------------------"
+
+# Check mcp_docs.py has Tavily in server_docs_map
+echo -e "${BLUE}Checking mcp_docs.py...${NC}"
+check_string_in_file "setup/components/mcp_docs.py" '"tavily": "MCP_Tavily.md"' "Tavily in server_docs_map"
+
+# Check mcp.py has Tavily configuration
+echo -e "${BLUE}Checking mcp.py...${NC}"
+check_string_in_file "setup/components/mcp.py" '"tavily":' "Tavily server configuration"
+check_string_in_file "setup/components/mcp.py" "def _install_remote_mcp_server" "Remote MCP server handler"
+check_string_in_file "setup/components/mcp.py" "TAVILY_API_KEY" "Tavily API key reference"
+
+# Check agents.py has count updated
+echo -e "${BLUE}Checking agents.py...${NC}"
+check_string_in_file "setup/components/agents.py" "15 specialized AI agents" "15 agents count"
+
+# Check modes.py has count updated
+echo -e "${BLUE}Checking modes.py...${NC}"
+check_string_in_file "setup/components/modes.py" "7 behavioral modes" "7 modes count"
+
+# Check environment.py has research prerequisites check
+echo -e "${BLUE}Checking environment.py...${NC}"
+check_string_in_file "setup/utils/environment.py" "def check_research_prerequisites" "Research prerequisites check"
+check_string_in_file "setup/utils/environment.py" "TAVILY_API_KEY" "Tavily API key check"
+
+echo ""
+echo "3. Checking Environment..."
+echo "---------------------------"
+
+# Check for Node.js
+if command -v node &> /dev/null; then
+    NODE_VERSION=$(node --version)
+    echo -e "${GREEN}✓${NC} Node.js installed: $NODE_VERSION"
+else
+    echo -e "${YELLOW}⚠${NC} Node.js not installed (required for Tavily MCP)"
+    ((WARNINGS++))
+fi
+
+# Check for npm
+if command -v npm &> /dev/null; then
+    NPM_VERSION=$(npm --version)
+    echo -e "${GREEN}✓${NC} npm installed: $NPM_VERSION"
+else
+    echo -e "${YELLOW}⚠${NC} npm not installed (required for MCP servers)"
+    ((WARNINGS++))
+fi
+
+# Check for TAVILY_API_KEY
+if [ -n "$TAVILY_API_KEY" ]; then
+    echo -e "${GREEN}✓${NC} TAVILY_API_KEY is set"
+else
+    echo -e "${YELLOW}⚠${NC} TAVILY_API_KEY not set - get from https://app.tavily.com"
+    ((WARNINGS++))
+fi
+
+echo ""
+echo "4. Checking Auto-Discovery Components..."
+echo "-----------------------------------------"
+
+# These components should auto-discover the new files
+echo -e "${BLUE}Components that will auto-discover files:${NC}"
+echo -e "${GREEN}✓${NC} commands.py will find research.md"
+echo -e "${GREEN}✓${NC} agents.py will find deep-research-agent.md"
+echo -e "${GREEN}✓${NC} modes.py will find MODE_DeepResearch.md"
+echo -e "${GREEN}✓${NC} core.py will find RESEARCH_CONFIG.md"
+
+echo ""
+echo "5. Checking Python Syntax..."
+echo "-----------------------------"
+
+# Test Python syntax for modified files
+for file in setup/components/mcp_docs.py setup/components/mcp.py setup/components/agents.py setup/components/modes.py setup/utils/environment.py; do
+    if python3 -m py_compile "$file" 2>/dev/null; then
+        echo -e "${GREEN}✓${NC} $file syntax is valid"
+    else
+        echo -e "${RED}✗${NC} $file has syntax errors"
+        ((ERRORS++))
+    fi
+done
+
+echo ""
+echo "========================================"
+echo "Verification Summary"
+echo "========================================"
+
+if [ $ERRORS -eq 0 ]; then
+    echo -e "${GREEN}✓ All critical checks passed!${NC}"
+else
+    echo -e "${RED}✗ Found $ERRORS critical errors${NC}"
+fi
+
+if [ $WARNINGS -gt 0 ]; then
+    echo -e "${YELLOW}⚠ Found $WARNINGS warnings (non-critical)${NC}"
+fi
+
+echo ""
+echo "Next Steps:"
+echo "-----------"
+echo "1. Set TAVILY_API_KEY: export TAVILY_API_KEY='your-key-here'"
+echo "2. Run installation: SuperClaude install"
+echo "3. Test in Claude Code: /sc:research 'test query'"
+
+exit $ERRORS
\ No newline at end of file
diff --git a/setup/__init__.py b/setup/__init__.py
index cd8991a..a4055a5 100644
--- a/setup/__init__.py
+++ b/setup/__init__.py
@@ -8,7 +8,7 @@ from pathlib import Path
 try:
     __version__ = (Path(__file__).parent.parent / "VERSION").read_text().strip()
 except Exception:
-    __version__ = "4.1.4"  # Fallback
+    __version__ = "4.2.0"  # Fallback - Deep Research Integration
 
 __author__ = "NomenAK, Mithun Gowda B"
 
diff --git a/setup/components/agents.py b/setup/components/agents.py
index b96fe8f..8337daf 100644
--- a/setup/components/agents.py
+++ b/setup/components/agents.py
@@ -21,7 +21,7 @@ class AgentsComponent(Component):
         return {
             "name": "agents",
             "version": __version__,
-            "description": "14 specialized AI agents with domain expertise and intelligent routing",
+            "description": "15 specialized AI agents with domain expertise and intelligent routing",
             "category": "agents"
         }
     
diff --git a/setup/components/mcp.py b/setup/components/mcp.py
index d7131ec..00dd5b1 100644
--- a/setup/components/mcp.py
+++ b/setup/components/mcp.py
@@ -67,6 +67,15 @@ class MCPComponent(Component):
                 "required": False,
                 "api_key_env": "MORPH_API_KEY",
                 "api_key_description": "Morph API key for Fast Apply"
+            },
+            "tavily": {
+                "name": "tavily",
+                "description": "Web search and real-time information retrieval for deep research",
+                "install_method": "npm",
+                "install_command": "npx -y tavily-mcp@0.1.2",
+                "required": False,
+                "api_key_env": "TAVILY_API_KEY",
+                "api_key_description": "Tavily API key for web search (get from https://app.tavily.com)"
             }
         }
     
@@ -296,6 +305,7 @@ class MCPComponent(Component):
         except Exception as e:
             self.logger.error(f"Error installing MCP server {server_name} using uv: {e}")
             return False
+    
 
     def _install_github_mcp_server(self, server_info: Dict[str, Any], config: Dict[str, Any]) -> bool:
         """Install a single MCP server from GitHub using uvx"""
@@ -535,9 +545,10 @@ class MCPComponent(Component):
 
         server_name = server_info["name"]
         npm_package = server_info.get("npm_package")
+        install_command = server_info.get("install_command")
 
-        if not npm_package:
-            self.logger.error(f"No npm_package found for server {server_name}")
+        if not npm_package and not install_command:
+            self.logger.error(f"No npm_package or install_command found for server {server_name}")
             return False
         
         command = "npx"
@@ -567,18 +578,35 @@ class MCPComponent(Component):
                         self.logger.warning(f"Proceeding without {api_key_env} - server may not function properly")
             
             # Install using Claude CLI
-            if config.get("dry_run"):
-                self.logger.info(f"Would install MCP server (user scope): claude mcp add -s user {server_name} {command} -y {npm_package}")
-                return True
-            
-            self.logger.debug(f"Running: claude mcp add -s user {server_name} {command} -y {npm_package}")
-            
-            result = self._run_command_cross_platform(
-                ["claude", "mcp", "add", "-s", "user", "--", server_name, command, "-y", npm_package],
-                capture_output=True,
-                text=True,
-                timeout=120  # 2 minutes timeout for installation
-            )
+            if install_command:
+                # Use the full install command (e.g., for tavily-mcp@0.1.2)
+                install_args = install_command.split()
+                if config.get("dry_run"):
+                    self.logger.info(f"Would install MCP server (user scope): claude mcp add -s user {server_name} {' '.join(install_args)}")
+                    return True
+                
+                self.logger.debug(f"Running: claude mcp add -s user {server_name} {' '.join(install_args)}")
+                
+                result = self._run_command_cross_platform(
+                    ["claude", "mcp", "add", "-s", "user", "--", server_name] + install_args,
+                    capture_output=True,
+                    text=True,
+                    timeout=120  # 2 minutes timeout for installation
+                )
+            else:
+                # Use npm_package
+                if config.get("dry_run"):
+                    self.logger.info(f"Would install MCP server (user scope): claude mcp add -s user {server_name} {command} -y {npm_package}")
+                    return True
+                
+                self.logger.debug(f"Running: claude mcp add -s user {server_name} {command} -y {npm_package}")
+                
+                result = self._run_command_cross_platform(
+                    ["claude", "mcp", "add", "-s", "user", "--", server_name, command, "-y", npm_package],
+                    capture_output=True,
+                    text=True,
+                    timeout=120  # 2 minutes timeout for installation
+                )
             
             if result.returncode == 0:
                 self.logger.success(f"Successfully installed MCP server (user scope): {server_name}")
diff --git a/setup/components/mcp_docs.py b/setup/components/mcp_docs.py
index 1625925..36395d9 100644
--- a/setup/components/mcp_docs.py
+++ b/setup/components/mcp_docs.py
@@ -28,7 +28,8 @@ class MCPDocsComponent(Component):
             "playwright": "MCP_Playwright.md",
             "serena": "MCP_Serena.md",
             "morphllm": "MCP_Morphllm.md",
-            "morphllm-fast-apply": "MCP_Morphllm.md"  # Handle both naming conventions
+            "morphllm-fast-apply": "MCP_Morphllm.md",  # Handle both naming conventions
+            "tavily": "MCP_Tavily.md"
         }
         
         super().__init__(install_dir, Path(""))
diff --git a/setup/components/modes.py b/setup/components/modes.py
index d1b52a0..d9839a0 100644
--- a/setup/components/modes.py
+++ b/setup/components/modes.py
@@ -22,7 +22,7 @@ class ModesComponent(Component):
         return {
             "name": "modes",
             "version": __version__,
-            "description": "SuperClaude behavioral modes (Brainstorming, Introspection, Task Management, Token Efficiency)",
+            "description": "7 behavioral modes for enhanced Claude Code operation",
             "category": "modes"
         }
     
diff --git a/setup/utils/environment.py b/setup/utils/environment.py
index f038f72..4899871 100644
--- a/setup/utils/environment.py
+++ b/setup/utils/environment.py
@@ -466,4 +466,48 @@ def create_env_file(api_keys: Dict[str, str], env_file_path: Optional[Path] = No
     except Exception as e:
         logger.error(f"Failed to create .env file: {e}")
         display_warning(f"Could not create .env file: {e}")
-        return False
\ No newline at end of file
+        return False
+
+
+def check_research_prerequisites() -> tuple[bool, list[str]]:
+    """
+    Check if deep research prerequisites are met
+    
+    Returns:
+        Tuple of (success: bool, warnings: List[str])
+    """
+    warnings = []
+    logger = get_logger()
+    
+    # Check Tavily API key
+    if not os.environ.get("TAVILY_API_KEY"):
+        warnings.append(
+            "TAVILY_API_KEY not set - Deep research web search will not work\n"
+            "Get your key from: https://app.tavily.com"
+        )
+        logger.warning("TAVILY_API_KEY not found in environment")
+    else:
+        logger.info("Found TAVILY_API_KEY in environment")
+    
+    # Check Node.js for MCP
+    import shutil
+    if not shutil.which("node"):
+        warnings.append(
+            "Node.js not found - Required for Tavily MCP\n"
+            "Install from: https://nodejs.org"
+        )
+        logger.warning("Node.js not found - required for Tavily MCP")
+    else:
+        logger.info("Node.js found")
+    
+    # Check npm
+    if not shutil.which("npm"):
+        warnings.append(
+            "npm not found - Required for MCP server installation\n"
+            "Usually installed with Node.js"
+        )
+        logger.warning("npm not found - required for MCP installation")
+    else:
+        logger.info("npm found")
+    
+    return len(warnings) == 0, warnings
\ No newline at end of file