Just did a quick test on fresh install with proper configurations from start ...

Just did a quick test on fresh install with proper configurations from start and no content moderation module, it works fine

http://dev.nik4u.com/node/1
http://dev.nik4u.com/ar/node/1

I modified multiple times and it stored proper status (status 1) in file_usage and entry in file_managed.

I'm still not sure about marking this as duplicate as original scenario mentioned above might be different.