David to me it's fairly clear you have an issue with your database and one of the symptoms is that Wordfence is unable to create tables and/or store data in them on your server. I'm unsure how you're making the leap that it's Wordfence that's the cause of your DB issues. We just use the MySQL API as it's designed - on tens of thousands of sites every day and WF runs fine. Usually when there's a serious issue you'll see many other users piling onto this thread with "me too" posts.
So I think you need to investigate your DB. You've flagged WF as broken and you're saying we have an ugly bug, but help me understand what makes you think this has anything to do with Wordfence.
As far as I'm aware, it's not currently possible for an app using the PHP mysql interface to do something that produces low level table corruption - and if it were that would be a bug in MySQL or the PHP interface, not the PHP app itself.
Regards,
Mark.