For the longest time I had the game in Windowed Fullscreen mode, not sure which update recently caused that to go Fullscreen mode. I tried a few days ago to set it to Windowed Fullscreen mode and since I use mods, I had to restart the game, upon doing so, it was back to Fullscreen mode. As for other changes, I did not try much, since everything has stayed the same pretty much for a long time.
When I did the change and quit, it was at the screen for loading games, it did not remember the change away from Fullscreen to Windowed Fullscreen. When I run the game now, it sees the change, but that only seemed to work after saving a game. Without knowing where the data for these settings is saved, I can't validate if the change was indeed recorded without the Save of a game.
I've not tested any other game settings, aside from turning mods on after the update that disabled them. Enabling the mods worked as normal.
GuruSR.