Ok now i understood, that is the expected behavior, why else would anyone edit the ini files if he didn't want the changes to stick? Unless if you edited the original gameini, you just have to delete your local changes. If you mistakenly edited the original ini files, redownload dolphin.
Edit: Scratch that, define what you mean with a second session, restarting dolphin or closing and reopening the game? Also general settings don't overide gameini files unless if you open the graphics config window after starting a game.
Edit: Scratch that, define what you mean with a second session, restarting dolphin or closing and reopening the game? Also general settings don't overide gameini files unless if you open the graphics config window after starting a game.