fix: add context_note to non-skill agent registration for extensions

Add context_note parameter to register_commands_for_non_skill_agents
and pass extension name/id during reconciliation so rendered command
files preserve the extension-specific context markers.

Author: mnriem

src/specify_cli/agents.py

@@ -657,6 +657,7 @@ def register_commands_for_non_skill_agents(
         source_id: str,
         source_dir: Path,
         project_root: Path,
+        context_note: str = None,
     ) -> Dict[str, List[str]]:
         """Register commands for all non-skill agents in the project.
 
@@ -669,6 +670,7 @@ def register_commands_for_non_skill_agents(
             source_id: Identifier of the source
             source_dir: Directory containing command source files
             project_root: Path to project root
+            context_note: Custom context comment for markdown output
 
         Returns:
             Dictionary mapping agent names to list of registered commands
@@ -684,6 +686,7 @@ def register_commands_for_non_skill_agents(
                     registered = self.register_commands(
                         agent_name, commands, source_id,
                         source_dir, project_root,
+                        context_note=context_note,
                     )
                     if registered:
                         results[agent_name] = registered

src/specify_cli/presets.py

@@ -747,9 +747,11 @@ def _reconcile_composed_commands(self, command_names: List[str]) -> None:
                                     if c.get("name") == cmd_name
                                 ]
                                 if matching_cmds:
+                                    ext_name = ext_manifest.data.get("extension", {}).get("name", ext_id)
                                     registrar.register_commands_for_non_skill_agents(
                                         matching_cmds, ext_id, ext_dir,
                                         self.project_root,
+                                        context_note=f"Extension: {ext_name} ({ext_id})",
                                     )
                                     registered = True
                             except Exception: