Fix todo deletion not refreshing milestone widgets and file watcher race condition

- Add _load_milestones() call after _load_todos() in _on_todo_deleted and
  _on_todo_edited to refresh milestone widgets showing linked todos
- Replace boolean _ignoring_file_change flag with timestamp-based ignore
  window (0.5s) to handle multiple file system events from a single save
- Add _is_within_save_window() helper method for cleaner event filtering

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

src/development_hub/views/dashboard/data_store.py

@@ -1,5 +1,6 @@
 """Data storage and file management for the dashboard."""
 
+import time
 from datetime import date
 from pathlib import Path
 from typing import Any
@@ -78,7 +79,9 @@ class DashboardDataStore(QObject):
         self._ideas_list: list[Goal] | None = None
 
         # File watching
-        self._ignoring_file_change = False
+        # Use timestamp to ignore file events shortly after saving (handles multiple events)
+        self._last_save_time: float = 0
+        self._save_ignore_window = 0.5  # seconds to ignore file events after save
         self._file_watcher = QFileSystemWatcher(self)
         self._file_watcher.fileChanged.connect(self._on_file_changed)
         self._file_watcher.directoryChanged.connect(self._on_directory_changed)
@@ -262,14 +265,14 @@ class DashboardDataStore(QObject):
     def save_todos(self) -> None:
         """Save todos with file watcher temporarily disabled."""
         if self._todos_parser and self._todo_list:
-            self._ignoring_file_change = True
+            self._last_save_time = time.time()
             self._todos_parser.save(self._todo_list)
             self._ensure_file_watched()
 
     def save_goals(self) -> None:
         """Save goals with file watcher temporarily disabled."""
         if self._goals_parser and self._goal_list:
-            self._ignoring_file_change = True
+            self._last_save_time = time.time()
             saver = GoalsSaver(self._goals_path, self._goals_parser.frontmatter)
             saver.save(self._goal_list)
             self._ensure_file_watched()
@@ -277,7 +280,7 @@ class DashboardDataStore(QObject):
     def save_milestones(self) -> None:
         """Save milestones with file watcher temporarily disabled."""
         if self._milestones_parser and self._milestones_list:
-            self._ignoring_file_change = True
+            self._last_save_time = time.time()
             self._milestones_parser.save(self._milestones_list)
             self._ensure_file_watched()
 
@@ -286,7 +289,7 @@ class DashboardDataStore(QObject):
         if self._is_global or not self._ideas_path:
             return
 
-        self._ignoring_file_change = True
+        self._last_save_time = time.time()
 
         lines = []
         lines.append("---")
@@ -864,10 +867,13 @@ class DashboardDataStore(QObject):
                 if file_path.parent.exists() and parent not in watched_dirs:
                     self._file_watcher.addPath(parent)
 
+    def _is_within_save_window(self) -> bool:
+        """Check if we're within the ignore window after a save."""
+        return (time.time() - self._last_save_time) < self._save_ignore_window
+
     def _on_file_changed(self, path: str) -> None:
         """Handle file modification events."""
-        if self._ignoring_file_change:
+        if self._is_within_save_window():
-            self._ignoring_file_change = False
             self._ensure_file_watched()
             return
 
@@ -885,8 +891,7 @@ class DashboardDataStore(QObject):
 
     def _on_directory_changed(self, path: str) -> None:
         """Handle directory changes."""
-        if self._ignoring_file_change:
+        if self._is_within_save_window():
-            self._ignoring_file_change = False
             self._ensure_file_watched()
             return
 

src/development_hub/views/dashboard/project_dashboard.py

@@ -1,6 +1,8 @@
 """Project dashboard view."""
 
 import shutil
+import subprocess
+from datetime import datetime
 from pathlib import Path
 
 from PySide6.QtCore import Qt, Signal, QTimer, QThread
@@ -32,6 +34,7 @@ from development_hub.views.dashboard.undo_manager import UndoAction, UndoManager
 
 from development_hub.services.git_service import GitService
 from development_hub.models.health import HealthStatus
+from development_hub.parsers.base import atomic_write
 from development_hub.parsers.todos_parser import TodosParser
 from development_hub.models.todo import Todo, TodoList
 from development_hub.parsers.goals_parser import MilestonesParser, GoalsParser
@@ -2079,6 +2082,7 @@ class ProjectDashboard(QWidget):
 
             # Refresh UI
             self._load_todos()
+            self._load_milestones()
 
             # Show toast
             self.toast.show_message(
@@ -2105,6 +2109,7 @@ class ProjectDashboard(QWidget):
 
             # Refresh UI
             self._load_todos()
+            self._load_milestones()
 
             # Show toast
             self.toast.show_message(
@@ -2672,13 +2677,15 @@ class ProjectDashboard(QWidget):
         if confirm != QMessageBox.StandardButton.Ok:
             return
 
-        # Determine project key for the audit tool
+        # Determine paths for the audit tool
         if self.is_global:
-            project_key = "global"
+            project_name = "Global Goals"
-            project_root = None
+            milestones_path = self._docs_root / "goals" / "milestones.md"
+            project_dir = None
         else:
-            project_key = self.project.key
+            project_name = self.project.key
-            project_root = Path(self.project.path) if self.project.path else None
+            milestones_path = self._docs_root / "projects" / self.project.key / "milestones.md"
+            project_dir = Path(self.project.path) if self.project.path else None
 
         # Create progress dialog
         self._audit_dialog = QDialog(self)
@@ -2720,7 +2727,12 @@ class ProjectDashboard(QWidget):
 
         # Create worker and thread
         self._audit_thread = QThread()
-        self._audit_worker = AuditWorker(project_key, project_root)
+        self._audit_worker = AuditWorker(
+            project_name=project_name,
+            goals_path=goals_path,
+            milestones_path=milestones_path if milestones_path.exists() else None,
+            project_dir=project_dir,
+        )
         self._audit_worker.moveToThread(self._audit_thread)
 
         # Connect signals