docs: clean root directory and archive historical documentation

Major cleanup of root directory markdown files:

CLEANUP ACTIONS:
- Moved 37 historical markdown files from root to doc/.archive/
- Organized archive into logical categories:
  - phase1/, phase2/, phase3/ - Phase implementation summaries
  - working-docs/ - Operational documents and status reports
- Created comprehensive archive index (doc/.archive/README.md)
- Preserved all file history using git mv

CONTENT INTEGRATION:
- Extracted test script setup from AGENTS.md
- Added 'Option A: Using Test Script' section to development-setup.md
- Documented .venv_ci isolated testing workflow
- Ensured all unique information preserved before archiving

FINAL STATE:
- Root directory now contains only 8 core files:
  * README.md, AGENTS.md, CODE_OF_CONDUCT.md, CONTRIBUTING.md
  * LICENSE.md, NOTICE.md, SECURITY.md, SUPPORT.md
- All historical docs organized in doc/.archive/ with full index
- Archive README provides navigation and search guidance

FILES ARCHIVED (37 total):
Phase Docs (5):
- PHASE_1_IMPLEMENTATION_SUMMARY.md → phase1/
- PHASE_2_COMPLETION_STATUS.md, PHASE_2_IMPLEMENTATION_SUMMARY.md → phase2/
- PHASE_3_COMPLETE.md, PHASE_3_PLAN.md → phase3/

Working Docs (32):
Summary Reports: AGENT_CONSOLIDATION_SUMMARY, CONFIG_UPDATE_SUMMARY,
  DELIVERABLES_SUMMARY, DOCLING_REORGANIZATION_SUMMARY, and 6 more
Analysis: BENCHMARK_RESULTS_ANALYSIS, CEREBRAS_ISSUE_DIAGNOSIS,
  CI_PIPELINE_STATUS, CODE_QUALITY_IMPROVEMENTS, and 9 more
Quick Reference: QUICK_REFERENCE, DOCUMENTAGENT_QUICK_REFERENCE,
  STREAMLIT_QUICK_START, OLLAMA_SETUP_COMPLETE
Completion: API_MIGRATION_COMPLETE, CONSOLIDATION_COMPLETE,
  PARSER_CONSOLIDATION_COMPLETE, REORGANIZATION_COMPLETE,
  DOCUMENTATION_CLEANUP_COMPLETE
Planning: GIT_COMMIT_SUMMARY, ROOT_CLEANUP_PLAN

This cleanup maintains professional root directory while preserving
complete project history and documentation evolution.

Closes documentation cleanup task.

Author: vinod0m

doc/.archive/README.md

@@ -0,0 +1,118 @@
+# Documentation Archive
+
+This directory contains historical documentation from previous development phases and implementation cycles. These files have been archived to maintain a clean root directory while preserving project history.
+
+## Archive Organization
+
+### Phase Documentation (`phase1/`, `phase2/`, `phase3/`)
+
+Historical implementation summaries and completion status from major development phases:
+
+- **phase1/**: `PHASE_1_IMPLEMENTATION_SUMMARY.md`
+- **phase2/**: `PHASE_2_COMPLETION_STATUS.md`, `PHASE_2_IMPLEMENTATION_SUMMARY.md`
+- **phase3/**: `PHASE_3_COMPLETE.md`, `PHASE_3_PLAN.md`
+
+### Working Documents (`working-docs/`)
+
+Operational documents created during development, including:
+
+**Summary Reports:**
+
+- `AGENT_CONSOLIDATION_SUMMARY.md` - Agent module consolidation details
+- `CONFIG_UPDATE_SUMMARY.md` - Configuration changes and updates
+- `DELIVERABLES_SUMMARY.md` - Project deliverables tracking
+- `DOCLING_REORGANIZATION_SUMMARY.md` - Docling integration reorganization
+- `DOCUMENT_PARSER_ENHANCEMENT_SUMMARY.md` - Parser improvements
+- `ITERATION_SUMMARY.md` - Development iteration summaries
+- `REORGANIZATION_SUMMARY.md` - Code reorganization efforts
+- `TEST_FIXES_SUMMARY.md` - Test suite fixes and improvements
+- `TEST_RESULTS_SUMMARY.md` - Test execution results
+- `TEST_VERIFICATION_SUMMARY.md` - Test verification activities
+
+**Analysis & Status Documents:**
+
+- `BENCHMARK_RESULTS_ANALYSIS.md` - Performance benchmark analysis
+- `CEREBRAS_ISSUE_DIAGNOSIS.md` - Cerebras integration diagnostics
+- `CI_PIPELINE_STATUS.md` - CI/CD pipeline status reports
+- `CODE_QUALITY_IMPROVEMENTS.md` - Code quality enhancements
+- `CONSISTENCY_ANALYSIS.md` - Codebase consistency checks
+- `DEPLOYMENT_CHECKLIST.md` - Deployment preparation and validation
+- `INTEGRATION_ANALYSIS_requirements_agent.md` - Requirements agent integration
+- `PR_UPDATE.md` - Pull request updates and changes
+- `PRE_TASK4_ENHANCEMENTS.md` - Pre-task enhancements
+- `DOCUMENT_AGENT_CONSOLIDATION.md` - Document agent consolidation work
+- `EXAMPLES_FOLDER_REORGANIZATION.md` - Examples directory restructuring
+- `STREAMLIT_UI_IMPROVEMENTS.md` - Streamlit interface enhancements
+- `TEST_EXECUTION_REPORT.md` - Detailed test execution reports
+
+**Quick Reference & Setup:**
+
+- `QUICK_REFERENCE.md` - General quick reference guide
+- `DOCUMENTAGENT_QUICK_REFERENCE.md` - Document agent quick start
+- `STREAMLIT_QUICK_START.md` - Streamlit setup and usage
+- `OLLAMA_SETUP_COMPLETE.md` - Ollama integration completion
+
+**Completion Reports:**
+
+- `API_MIGRATION_COMPLETE.md` - API migration completion
+- `CONSOLIDATION_COMPLETE.md` - Module consolidation completion
+- `DOCUMENTATION_CLEANUP_COMPLETE.md` - Documentation cleanup completion
+- `PARSER_CONSOLIDATION_COMPLETE.md` - Parser consolidation completion
+- `REORGANIZATION_COMPLETE.md` - Code reorganization completion
+
+**Planning & Tracking:**
+
+- `GIT_COMMIT_SUMMARY.md` - Git commit summaries and history
+- `ROOT_CLEANUP_PLAN.md` - Root directory cleanup planning
+
+## Current Documentation
+
+Active documentation is maintained in the parent `doc/` directory:
+
+- **User Guides** (`doc/user-guide/`) - End-user documentation
+- **Developer Guides** (`doc/developer-guide/`) - Development setup and workflows
+- **Features** (`doc/features/`) - Feature documentation and specifications
+- **Architecture** (`doc/architecture/`) - System architecture and design
+- **Specifications** (`doc/specs/`) - Technical specifications and templates
+
+## Why These Files Are Archived
+
+These documents represent:
+
+1. **Historical records** from completed development phases
+2. **Working documents** used during active development
+3. **Status reports** from specific implementation periods
+4. **Completion markers** indicating finished work
+
+All unique and relevant information from these documents has been integrated into the current documentation structure. They are preserved here for:
+
+- Historical reference and audit trails
+- Understanding project evolution
+- Tracking decision-making processes
+- Maintaining complete project history
+
+## Accessing Archived Content
+
+To view archived documentation:
+
+```bash
+# List all archived files
+find doc/.archive -name "*.md" | sort
+
+# Search for specific content
+grep -r "search term" doc/.archive/
+
+# View a specific archived file
+cat doc/.archive/working-docs/FILENAME.md
+```
+
+## Archive Maintenance
+
+- **Created**: December 2024
+- **Purpose**: Root directory cleanup and documentation organization
+- **Retention**: Permanent (historical record)
+- **Updates**: Archive is append-only; files are not modified after archiving
+
+---
+
+*For current documentation, see the main [doc/README.md](../README.md)*