Not sure if you CAN shut off autoop of the owner when de-oped. My personal quetion is why the is owner is being de-opped? You may try making sure protect ops is off via party line, but I still don't think this will work for an owner.
SniperAC, what you said doesn't have anything to do with his problem.. that would deop all users who aren't marked as ops. His problem is that the bot re-ops him if someone deops him.