When refreshing the FTP directory periodically, three .dat files appeared. I have downloaded them and removed them from the FTP server. After starting up bitcoind with them I will report on any addresses they contain that have been seen in the block chain. If they turn out to be your addresses, create a new wallet on a secure machine and spend all of your coins to one of its addresses ASAP.
EDIT: More keep popping up every so often. I am downloading and deleting all that I find.
God bless you people helping us confused, thanks in advance for cracking it open.