Alright after about 2 hours of reinstalling and trying different options i finally got Sim city 4 and 3000 unlimited to work. But i lost all my save data, so thanks Lutris for completely changing all the wine settings and making proton take over everything.
98% of my games are 32 bit, so the new version didn't like them. I had to manually change everything and try several different runners to get these to actually work. Some are on System 11, some are on wine ge-8-26-x86_64, and some are on GE-Proton to get them to launch again, But i finally have all 19 games working again. What a pain.
I turned off automatic updates on lutris as a result.
I tried to use Heroic, but my copy of SimCity isn't a GOG game, so it wouldn't launch correctly. Heoric seems to have a much easier GUI though for installing games compared to Lutris, so no wonder so many people are switching over.