fix: nested agents now appear in CLI commands

- Fix getAgentsFromDir in bmad-artifacts.js to recursively scan subdirectories
- This ensures agents like cbt-coach and wellness-companion that are in subdirectories are properly found
- Agents now correctly get slash commands in .claude/commands/bmad/mwm/agents/
- All agents from the manifest now have corresponding IDE commands

tools/cli/installers/lib/core/manifest-generator.js

@@ -260,13 +260,13 @@ class ManifestGenerator {
         const principlesMatch = content.match(/<principles>([\s\S]*?)<\/principles>/);
 
         // Build relative path for installation
-        const fileRelativePath = relativePath ? `${relativePath}/${file}` : file;
+        const fileRelativePath = relativePath ? `${relativePath}/${entry.name}` : entry.name;
         const installPath =
           moduleName === 'core'
             ? `${this.bmadFolderName}/core/agents/${fileRelativePath}`
             : `${this.bmadFolderName}/${moduleName}/agents/${fileRelativePath}`;
 
-        const agentName = file.replace('.md', '');
+        const agentName = entry.name.replace('.md', '');
 
         // Helper function to clean and escape CSV content
         const cleanForCSV = (text) => {

tools/cli/installers/lib/ide/shared/bmad-artifacts.js

@@ -83,39 +83,42 @@ async function getAgentsFromDir(dirPath, moduleName) {
     return agents;
   }
 
-  const files = await fs.readdir(dirPath);
+  const entries = await fs.readdir(dirPath, { withFileTypes: true });
 
-  for (const file of files) {
-    if (!file.endsWith('.md')) {
-      continue;
+  for (const entry of entries) {
+    const fullPath = path.join(dirPath, entry.name);
+
+    if (entry.isDirectory()) {
+      // Recurse into subdirectories
+      const subDirAgents = await getAgentsFromDir(fullPath, moduleName);
+      agents.push(...subDirAgents);
+    } else if (entry.name.endsWith('.md')) {
+      // Skip README files and other non-agent files
+      if (entry.name.toLowerCase() === 'readme.md' || entry.name.toLowerCase().startsWith('readme-')) {
+        continue;
+      }
+
+      if (entry.name.includes('.customize.')) {
+        continue;
+      }
+
+      const content = await fs.readFile(fullPath, 'utf8');
+
+      if (content.includes('localskip="true"')) {
+        continue;
+      }
+
+      // Only include files that have agent-specific content (compiled agents have <agent> tag)
+      if (!content.includes('<agent')) {
+        continue;
+      }
+
+      agents.push({
+        path: fullPath,
+        name: entry.name.replace('.md', ''),
+        module: moduleName,
+      });
     }
-
-    // Skip README files and other non-agent files
-    if (file.toLowerCase() === 'readme.md' || file.toLowerCase().startsWith('readme-')) {
-      continue;
-    }
-
-    if (file.includes('.customize.')) {
-      continue;
-    }
-
-    const filePath = path.join(dirPath, file);
-    const content = await fs.readFile(filePath, 'utf8');
-
-    if (content.includes('localskip="true"')) {
-      continue;
-    }
-
-    // Only include files that have agent-specific content (compiled agents have <agent> tag)
-    if (!content.includes('<agent')) {
-      continue;
-    }
-
-    agents.push({
-      path: filePath,
-      name: file.replace('.md', ''),
-      module: moduleName,
-    });
   }
 
   return agents;