Sometimes the save method takes an admin user as current user

[joebordes]

I searched for the fix and found it September 2015. That was a while back!!

commit 6f132cedb61223db8b0dc5cc14ade9d0d5df3a0a
Author: Omar Llorens <omar@tsolucio.com>
Date:   Thu Sep 17 15:00:40 2015 +0200

So I suppose this isn't your issue.

I would suggest activating debugging and adding a log->fatal of current_user in the CRMEntity->save() function to see when it changes