- Replaced all direct `process.cwd()` calls with `getProjectDir()` utility function across 40+ files to centralize project directory resolution logic.
- Added `getProjectDir()` and `setProjectDir()` functions to `@oh-my-pi/pi-utils/dirs` module to provide abstracted project directory management.
- Made `SessionManager.list()` method asynchronous to support asynchronous session discovery operations.
- Updated default working directory resolution throughout codebase to use `getProjectDir()` instead of `process.cwd()` for improved project directory detection.
- Migrated all environment variable access from Node.js `process.env` to Bun runtime `Bun.env` API across the entire codebase.
- Updated 71 files including source code, tests, documentation, and configuration to use Bun's native environment variable API.
- Added comprehensive environment variables documentation in `packages/coding-agent/docs/environment-variables.md` covering 100+ environment variables organized by category.
- Updated CHANGELOG entries to reflect migration from `process.env` to `Bun.env` and environment variable prefix changes (PI_* vs OMP_*).
- Maintained identical behavior and logic across all changes - only the environment variable access method was updated.
- Replaced SettingsManager class with new Settings singleton providing synchronous get/set API and background persistence.
- Introduced settings-schema.ts as single source of truth for all configuration definitions with 100+ settings organized into logical groups.
- Migrated from method-based settings access (getTheme(), setTheme()) to path-based access using dot notation (settings.get('theme'), settings.set('theme', value)).
- Removed 2035-line settings-manager.ts file and replaced with modular settings.ts (693 lines) and settings-schema.ts (836 lines) for improved maintainability.
- Unified settings schema into single source of truth eliminating duplicate definitions across settings-defs.ts and settings-manager.ts.
- Removed Prettier configuration files (.prettierignore and .prettierrc) and migrated formatting to Biome.
- Updated Biome configuration from version 2.3.11 to 2.3.12 and changed arrowParentheses rule from 'always' to 'asNeeded'.
- Pinned @biomejs/biome dependency to exact version 2.3.12 in package.json and bun.lock.
- Applied consistent arrow function formatting across 489 files by removing unnecessary parentheses around single parameters.
- Removed blank lines after comment blocks and reorganized imports for consistency across the codebase.
- Converted readdirSync, readFileSync, and statSync to async readdir, readFile, stat across skills and agent discovery.
- Made scanDirectoryForSkills async and refactored custom directory scanning to use Promise.all for concurrent processing.
- Updated agent discovery to use fs/promises for async file reading and refactored helper patterns.
- Added AgentParsingError exception class for better error handling during agent parsing.
- Added filesystem error type guards (isEnoent, isEacces, isPerm, etc.) to pi-utils for safe error checking.
- Added color manipulation utilities to pi-utils for accessibility features.
- Added color-blind mode setting to settings manager.
- Migrated plugins, settings, and config modules from sync to async file operations.
- Updated error handling to use new pi-utils type guards for type-safe checking.
- Added tsconfig.publish.json files to all packages with optimized publish-time configuration.
- Updated all package.json scripts with prepublishOnly hooks for correct type checking during publish.
- Added @oh-my-pi/omp-stats path mappings to root tsconfig.json for consistent imports.
- Added WASM generation script for photon module and integrated into install:dev script.
- converted relative imports to path aliases ($c/*, $ai/*, $tui/*, etc.) across all packages
- added per-package tsconfig.json with complete path mappings for runtime resolution
- set importModuleSpecifier to non-relative for IDE auto-import preferences
- updated dev script to run from monorepo root for consistent path resolution
- Simplified Python gateway coordination by removing reference counting and idle timeout functionality.
- Updated Python kernel initialization to support environment variable setup and working directory configuration.
- Modified interactive status display to show Python and venv paths instead of client counts.
- Updated system prompt to clarify CHECKPOINT step 0 timing after user request completion.
- Added multi-cell Python execution with sequential processing in persistent kernel.
- Changed Python tool API to use cells array instead of single code parameter.
- Renamed workdir parameter to cwd across Bash and Python tools for consistency.
- Fixed indentation adjustment logic for mixed indentation levels in patch tool.
- Removed voice control and TTS features from coding-agent package.
- Removed git tool integration and worktree management from coding-agent.
- Deleted entire git-tool package and all git operations.
- Inlined OpenAI Codex prompt utilities and removed provider exports.
- Converted all tool implementations from factory functions to class-based architecture.
- Updated SDK exports to expose tool classes instead of create*Tool factory functions.
- Refactored tool instantiation patterns across all built-in tools and test files.
- Added proper TypeScript typing with AgentToolResult and AgentToolUpdateCallback interfaces.
- Moved test files from src/core to test/core directory.
- Moved test files from src/core/tools to test/tools directory.
- Moved test files from src/discovery to test/discovery directory.
- Updated import paths to reflect new test file locations.
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