I've seen a few people try this, so maybe it will work for you. Try uninstalling the game data (but not your saves). Re-install and see if the game still has those issues with the patch.
That was my next step, I have been trying to get this to work for a while now, but it just locks up completely now. The game data shows back up without the 1.01 on it, but it locks up right away without even getting to the autosave prompt. I have tried this 3 times now, but all with my system online, so I will try offline next.