Coins don't need to be "transferred". The way a blockchain works, it's kind of like a public bank statement that tracks the money. Upgrading to a newer version doesn't really affect your coins (although after the fork I hope you didn't move the coins with the old wallet or you're screwed).
I would backup everything before you do anything else, and then try the
repairwallet rpc command
Can you post the log from your data folder?