This is an occasional Vanilla error too. Here is what I suggest you do.
- Find the BC config File. Make a backup of it. Open up the Original.
- Delete EVERYTHING EXCEPT:
- [features]
mod = broken_crescent - [io]
file_first = true
- Save it, close it, right click the file. Go to Properties. Make sure "Read Only" is checked.
Then load the game and input the options you want, then close it. Then open it again. If it's fixed, play the game. If it's not, then uncheck read only. If that doesn't fix the options resetting themselves, post back