I can handle having to start over. But if my save file keeps getting messed up, its a showstopper. OK, this is interesting - I saved again in-game, but it didn't change the save file. Maybe the patch changes the default file save location? Search... wtf, my save location is now "C:\Users\*\AppData\Local\VirtualStore\Program Files (x86)\Diablo". It's not a bug, its a feature. I don't care, as long as it stays consistent. I'll copy my higher level save file over the lower level save, see what happens. It's good, hopefully it stays that way.
Makes me a bit paranoid though; I'll RAR up a save file every so often, in case I need it. A great thing about playing really old games on a fairly current system is loading, saving, reloading, etc. are really fast.