docs: complete project documentation and task management cleanup

### Documentation Updates
- Added comprehensive WORKSPACE_AND_DATABASES.md documentation explaining:
  - Markitect's workspace-based architecture concept
  - Database separation (markitect.db vs assets.db) and purposes
  - Configuration management and asset integration
  - Best practices for development, collaboration, and production

### Changelog Management
- Updated CHANGELOG.md with complete release history coverage
- Added missing v0.8.0 entry for setuptools-SCM integration and release automation
- Added proper version comparison links for all releases
- Documented all recent work in Unreleased section following Keep a Changelog format

### Task Management
- Cleaned TODO.md file by removing all completed tasks
- Reset to clean state referencing changelog for completed work
- Maintained Keep a Todofile format for future development sessions

This completes the documentation and task management improvements for
the ChatGPT theme implementation, modular theme system, issue-facade
bug fixes, and workspace architecture clarification work.

🤖 Generated with [Claude Code](https://claude.ai/code)

Co-Authored-By: Claude <noreply@anthropic.com>

TODO.md

@@ -12,206 +12,10 @@ The structure organizes **future tasks** by their impact, just as a changelog or
 
 This section is for tasks currently being discussed with or worked on by the coding assistant. These are the ephemeral, flow-of-thought tasks.
 
-**🔧 FIX BROKEN ISSUE-FACADE CAPABILITY (2025-11-10) - COMPLETED ✅**:
-Successfully fixed the issue-facade capability by restructuring the package organization to match pyproject.toml expectations.
-
-**📋 Actions Completed**:
-- [x] Diagnosed package structure mismatch (pyproject.toml expected `issue_tracker` package but code was in flat structure)
-- [x] Fixed module import issue by creating `issue_tracker/` package and moving `cli/`, `core/`, `backends/` into it
-- [x] Verified capability functionality is restored (CLI commands working, package installs correctly)
-- [x] Tested with actual issue access (CLI prompts for backend configuration as expected)
-
-**🎨 IMPLEMENT DOCUMENT STYLING (Issue #166) - COMPLETED ✅**:
-Successfully implemented Substack-style document theme for enhanced long-form reading experience.
-
-**📋 Features Implemented**:
-- [x] Substack document theme in layered theme system
-- [x] Spectral serif font for body text (optimized for long-form reading)
-- [x] Lora sans-serif font for headings (clean typography hierarchy)
-- [x] Warm cream background (#FAF9F1) for reduced eye strain
-- [x] Bronze accent color (#b08d57) for visual hierarchy
-- [x] 680px max-width for optimal reading line length
-- [x] 1.6 line-height for comfortable reading
-- [x] Complete TDD test coverage (6/6 tests passing)
-- [x] CLI integration: `markitect md-render --theme substack`
-- [x] Layered theme compatibility with existing mode/UI themes
-
-**Implementation Details**:
-- Added to `LAYERED_THEMES` as document-scope theme
-- Extended CSS generation to support `heading_font_family` property
-- Maintained backward compatibility with `TEMPLATE_STYLES`
-- Full integration with existing theme system architecture
-
-**🧪 TESTDRIVE-JSUI CAPABILITY EXTRACTION (2025-11-09) - COMPLETED ✅**:
-Successfully extracted JavaScript UI framework functionality into a dedicated capability with complete automated test integration. The capability now provides 68 JavaScript tests + 11 Python integration tests for comprehensive testing coverage.
-
-**🏗️ MAJOR ARCHITECTURE REFACTORING (2025-11-03) - COMPLETED ✅**: Successfully completed comprehensive JavaScript refactoring using Test-Driven Development methodology.
-
-**PROBLEMS SOLVED**:
-1. ✅ **Monolithic Architecture**: Extracted 5,188-line `editor.js` into 4 modular components
-2. ✅ **Server-Side Debug Generation**: Implemented pure client-side DebugPanel component
-3. ✅ **Architectural Boundary Violations**: Clean separation with no Python code modifications
-4. ✅ **Tight Coupling**: All components independently testable with event-driven communication
-5. ✅ **Generic Editor Compromise**: Debug system now purely client-side and component-based
-
-**SOLUTION IMPLEMENTED**: Modular JavaScript Architecture with complete component separation and TDD validation.
-
-**📊 PREVIOUS STATUS (2025-11-02)**: Systematic JavaScript functionality recovery using TDD methodology had made excellent progress. **5 major features** were successfully implemented and tested:
-
-1. **Advanced EditState Management** ✅ - Implemented enum-based state tracking with pending changes preservation
-2. **Keyboard Shortcuts** ✅ - Added Ctrl+Enter (accept) and Escape (cancel) functionality
-3. **Section Splitting** ✅ - Restored dynamic heading detection with automatic section reorganization
-4. **Real-time Status Tracking** ✅ - Implemented periodic updates with visual status panel (2-second intervals)
-5. **Intelligent Filename Generation** ✅ - Added 4-method fallback system (options→title→URL→heading→timestamp)
-
-All implementations include comprehensive TDD test suites and are fully integrated into the existing codebase. The recovery approach has proven highly effective for restoring sophisticated lost functionality.
-
-## 🏗️ JAVASCRIPT ARCHITECTURE REFACTORING - COMPLETED ✅
-
-### **Phase 1: Preparation & Backup (CRITICAL) - ✅ COMPLETED**
-* ✅ Updated TODO.md with comprehensive refactoring plan
-* ✅ Created modular directory structure `markitect/static/js/`
-* ✅ Set up component template files with proper exports/imports
-* ✅ Implemented TDD test framework for safe refactoring
-
-### **Phase 2: Core System Extraction (HIGH) - ✅ COMPLETED**
-* ✅ Extracted SectionManager to `core/section-manager.js` (490 lines)
-* ✅ Integrated EventSystem into SectionManager with pub/sub pattern
-* ✅ Created comprehensive section state management with EditState enum
-
-### **Phase 3: Component Separation (HIGH) - ✅ COMPLETED**
-* ✅ Document Controls → `components/document-controls.js` (200 lines)
-* ✅ DOMRenderer (includes status functionality) → `components/dom-renderer.js` (540 lines)
-* ✅ Debug Panel → `components/debug-panel.js` (150 lines, pure client-side)
-* ✅ Floating Menu → integrated into DOMRenderer component
-* ✅ Text/Image Editors → integrated into DOMRenderer component
-
-### **Phase 4: Testing Infrastructure (MEDIUM) - ✅ COMPLETED**
-* ✅ Standalone TDD test runner (`RefactorTestRunner`) that doesn't require md-render
-* ✅ Component unit tests for all individual functionality
-* ✅ Integration tests for component interaction
-* ✅ Full system integration tests for complete workflow validation
-
-### **Phase 5: Integration & Cleanup (MEDIUM) - ✅ COMPLETED**
-* ✅ All components work together with preserved functionality
-* ✅ Monolithic editor.js functionality fully distributed
-* ✅ Python code completely unchanged - zero md-render modifications
-* ✅ All functionality validated through comprehensive test suite (31 tests passing)
-
-### **Directory Structure Implemented:**
-```
-markitect/static/js/
-├── core/
-│   └── section-manager.js      # ✅ Section state management with EventSystem (490 lines)
-├── components/
-│   ├── document-controls.js    # ✅ Document controls panel (200 lines)
-│   ├── dom-renderer.js         # ✅ DOM rendering, FloatingMenu, editors (540 lines)
-│   └── debug-panel.js          # ✅ Debug panel (150 lines, pure client-side)
-└── tests/
-    ├── refactor-test-runner.js     # ✅ TDD test framework
-    ├── test-component-integration.js      # ✅ Component integration tests
-    ├── test-full-integration.js           # ✅ Full system tests
-    ├── test-section-manager-extraction.js # ✅ SectionManager tests
-    ├── test-extracted-section-manager.js  # ✅ SectionManager TDD tests
-    ├── test-domrenderer-extraction.js     # ✅ DOMRenderer extraction tests
-    ├── test-extracted-domrenderer.js      # ✅ DOMRenderer TDD tests
-    ├── test-debugpanel-extraction.js      # ✅ DebugPanel extraction tests
-    ├── test-debugpanel-integration.js     # ✅ DebugPanel integration tests
-    └── test-documentcontrols-extraction.js # ✅ DocumentControls tests
-```
-
-### **REFACTORING RESULTS SUMMARY:**
-- **Lines Extracted**: 1,380 lines from monolithic 5,188-line editor.js
-- **Components Created**: 4 modular, independently testable components
-- **Tests Created**: 11 comprehensive test files with 31 passing tests
-- **Architecture**: Event-driven, pub/sub communication between components
-- **Functionality**: 100% preserved with zero regression
-- **Performance**: Improved modularity enables better maintainability and testing
-- **Python Code**: Zero modifications - clean architectural separation achieved
-
-### **PREVIOUS COMPLETED FEATURES (Now successfully refactored):**
-* **Successfully Refactored:**
-    * ✅ Advanced state management with EditState enum and pending changes (CRITICAL) - REFACTORED INTO SectionManager
-    * ✅ Keyboard shortcuts (Ctrl+Enter accept, Escape cancel) (CRITICAL) - REFACTORED INTO DOMRenderer
-    * ✅ Section splitting functionality for dynamic heading detection (HIGH) - REFACTORED INTO SectionManager
-    * ✅ Real-time status tracking with periodic updates (HIGH) - REFACTORED INTO DocumentControls
-    * ✅ Intelligent save filename generation with 4-method fallback (MEDIUM) - PRESERVED IN MONOLITH
-    * ✅ Professional message system with color-coded positioning (MEDIUM) - REFACTORED INTO DebugPanel
-    * ✅ Multiple concurrent editing sessions support (MEDIUM) - REFACTORED INTO DOMRenderer
-    * ✅ Enhanced DOM event system with 6 event types (LOW) - REFACTORED INTO DOMRenderer
-    * ✅ Automatic section type detection (heading, code, list, etc) (LOW) - REFACTORED INTO SectionManager
-    * ✅ Sophisticated section ID generation with hash-based algorithm (LOW) - REFACTORED INTO SectionManager
-
-* **Successfully Implemented:**
-    * ✅ Comprehensive status reporting dialog with detailed stats (HIGH) - IMPLEMENTED IN DocumentControls
-    * ✅ Floating global control panel with professional styling (MEDIUM) - IMPLEMENTED IN DocumentControls
-    * ✅ Enhanced setupSectionElement with comprehensive styling (LOW) - IMPLEMENTED IN DOMRenderer
-
-* **Core Methods Successfully Refactored:**
-    * ✅ stopEditing method with state preservation (CRITICAL) - REFACTORED INTO SectionManager
-    * ✅ getAllSections method for section collection management (MEDIUM) - REFACTORED INTO SectionManager
-    * ✅ hasChanges detection for unsaved modifications (HIGH) - REFACTORED INTO SectionManager
-    * ✅ updateGlobalStatus method with 2-second interval updates (MEDIUM) - REFACTORED INTO DocumentControls
-    * ✅ handleSectionSplit for dynamic section reorganization (LOW) - REFACTORED INTO SectionManager
-    * ✅ checkForSectionSplits automatic heading detection (LOW) - REFACTORED INTO SectionManager
-
-* **To Remove:**
-    * None currently identified
-
+*No active tasks at this time.*
 
 ***
 
 ## Completed Tasks
 
-**JavaScript Architecture Refactoring - COMPLETED ✅ (2025-11-03)**:
-- ✅ Successfully extracted monolithic 5,188-line editor.js into 4 modular components using TDD methodology
-- ✅ Created SectionManager component (490 lines) handling section state management and event system
-- ✅ Created DOMRenderer component (540 lines) handling DOM interactions, rendering, and editing workflows
-- ✅ Created DebugPanel component (150 lines) providing pure client-side debug message management
-- ✅ Created DocumentControls component (200 lines) managing floating control panel and document actions
-- ✅ Implemented comprehensive TDD test framework with 11 test files and 31 passing tests
-- ✅ Achieved 100% functionality preservation with zero regression through rigorous testing
-- ✅ Established event-driven architecture with pub/sub communication between components
-- ✅ Maintained complete separation from Python code - zero md-render modifications required
-- ✅ Created modular directory structure enabling independent component development and testing
-
-**Architecture Improvements Achieved**:
-- Clean separation of concerns with single-responsibility components
-- Event-driven communication reducing tight coupling
-- Independent component testing enabling confident refactoring
-- Scalable structure supporting future feature development
-- Client-side debug system eliminating server-side debug generation issues
-- Modular design allowing selective component updates without affecting others
-
-**Asset Shipping for md-render - COMPLETED ✅**:
-- ✅ Implemented automatic asset copying when rendering markdown to different output directories
-- ✅ Added asset discovery functionality parsing markdown for image/link references
-- ✅ Implemented timestamp-based asset copying (only copy if source newer than destination)
-- ✅ Added `--ship-assets` and `--no-ship-assets` CLI flags for explicit control
-- ✅ Added `MARKITECT_OUTPUT_DIR` environment variable support for default output directory
-- ✅ Smart defaults: assets ship automatically when output is directory, disabled for specific files
-- ✅ Preserved relative path structure in output directory maintaining markdown link compatibility
-- ✅ Graceful handling of missing assets with warning messages
-- ✅ Full backward compatibility with existing md-render workflows
-- ✅ Comprehensive TDD test suite covering all functionality and edge cases
-
-**Feature Capabilities**:
-- Environment variable priority: CLI `--output` > `MARKITECT_OUTPUT_DIR` > input file directory
-- Automatic asset discovery from standard markdown syntax: `![alt](path)` and `[text](path)`
-- Timestamp-based incremental copying prevents unnecessary file operations
-- Directory structure preservation maintains working relative links in output HTML
-- Support for images, documents, and other asset types referenced in markdown
-
-**CHANGELOG.md Enhancement - COMPLETED ✅**:
-- ✅ Added missing version entries for 0.1.0, 0.2.0, and 0.3.0
-- ✅ Added standard Keep a Changelog header with proper format
-- ✅ Included Unreleased section
-- ✅ Research completed for all historical versions using git log analysis
-- ✅ All entries follow Keep a Changelog categories (Added, Changed, Fixed)
-- ✅ Chronological order maintained with latest versions first
-- ✅ Appropriate release dates included based on git commit timestamps
-
-**Version Details Added**:
-- v0.1.0 (2025-10-15): Development infrastructure, TDD workspace, issue management
-- v0.2.0 (2025-10-20): Advanced Markdown Engine with GraphQL, search, plugins
-- v0.3.0 (2025-10-25): Architectural improvements with kaizen-agentic integration
+*Recent completed tasks have been documented in CHANGELOG.md following Keep a Changelog format.*