Loot bags do indeed remain when zoning. Sending the save to Larian would definitely fix it, I had to send mine in to be able to enter the hall of echoes. I think they are all out of the office until Monday, but they are very quick to respond when they are there. If you're playing the game on Windows 7 you need to show hidden files and folders, the location would be C:\Users\*youruser*\AppData\Local\Divinity II\ and then in the save games folder, they are numbered according to the order in which you saved, and of course, replace *youruser* with your user for Windows.
