Yes, but that's quite big... as you would have to have the unchanged mods, unchanged BWS files(fixes) etc. So in conclusion:
You need to start a new game...
You also have the possibility to start a new game in the BGII - SoA, but then your party won't be unchanged, as the BGT-Tweakpacks NPC component only effects the party members that are in the party during the transition, but you won't be going through it so, your party might change a bit...
I was somewhat afraid of that. This whole ordeal reminds me too much of this xkcd.
Anyway, the original problem that was the root cause of all my other problems is that the game crashed occasionally while resting (game would freeze as soon as I pressed the "rest" button, before anything else happend). This only started happening after I had already been playing for a while (never crashed at first).
Now, I realize this might be a slim hope, but is this perhaps a known (and hopefully easily fixed) issue? My google-fu failed me here as well, and I would hate for this to happen again in a new game.