chore: strip pre-fork version comments across 72 files

Removes standalone "// v0.X.X:" comment lines and inline trailing
version annotations. Keeps version references in config field docs
and compatibility notes where they describe requirements.

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

server/handlers/extension_permissions.go

@@ -10,7 +10,6 @@ import (
 )
 
 // ExtPermHandler serves extension permission management endpoints.
-// v0.29.0 CS2: Admin reviews and grants/revokes declared permissions.
 type ExtPermHandler struct {
 	stores store.Stores
 }