Basically the .vmdk files for the C: and D: drives lost their connection with the snapshot vmdk files. I was removing some snapshots to try and make the migration work smoother, and apparently it forgot what we were doing part way through. I used this site to find out how to do basic CID repair
http://sanbarrow.com/vmdk-basic-CID-chain-repair.html
http://sanbarrow.com/vmdk/vmdk-when-its-too-late.html
Worked like a champ, now my VM's are alive again on the new ESX Server.
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