Hello WelshPretender.
You might want to call support. With EV8, there is a tool called EVSVR, which might be helpfull. It is documented in the admin-guide I believe, but you might want to hear from the experts how to use it.
the tool basically can compare what is in the db to what you have on disk, and if necessary and possible, fix the db.
I have not (yet) had to use it. I did use the vsverify on ev7.5, which saved my db from being totally out of sync.
Gertjan
Regards. Gertjan