refactor(cli)!: rename all skills and agents to consistent ce- prefix (#503)

Co-authored-by: Claude Opus 4.6 (1M context) <noreply@anthropic.com>

src/targets/kiro.ts

@@ -2,11 +2,17 @@ import path from "path"
 import { backupFile, copySkillDir, ensureDir, pathExists, readJson, sanitizePathName, writeJson, writeText } from "../utils/files"
 import { transformContentForKiro } from "../converters/claude-to-kiro"
 import type { KiroBundle } from "../types/kiro"
+import { cleanupStaleSkillDirs, cleanupStaleAgents } from "../utils/legacy-cleanup"
 
 export async function writeKiroBundle(outputRoot: string, bundle: KiroBundle): Promise<void> {
   const paths = resolveKiroPaths(outputRoot)
   await ensureDir(paths.kiroDir)
 
+  // TODO(cleanup): Remove after v3 transition (circa Q3 2026)
+  await cleanupStaleSkillDirs(paths.skillsDir)
+  await cleanupStaleAgents(path.join(paths.agentsDir, "prompts"), ".md")
+  await cleanupStaleAgents(paths.agentsDir, ".json")
+
   // Write agents
   if (bundle.agents.length > 0) {
     for (const agent of bundle.agents) {