My enabled mods are things like armor, weapons. that kind of stuff. I don't have anything that edits bandits.
Are you sure? Not all mods just change certain things. Some mod makers are fairly sloppy and just about anything that can get changed in a game by a mod can get changed in the game by a mod, intentionally or not.
Also, you don't disable mods, you uninstall them. Plus, just because the mods are no longer present, this does not mean that the saves are not messed up that were created when those mods were installed and active.
I will move this to the mods section so you can post your load order.