To be fair, this isn’t normal proton doing it. In general GE-proton exists to do things that go against the design philosophy of regular proton or to include licenses libraries that can’t be normally included.
I don’t see any mention of it in the changelog, but I would expect there to be a launch option to disable this functionality as well.
If you have GE-proton installed, you can easily select it for any steam game by opening the game properties, checking “force compatibility tool”, and selecting the GE-proton version you want.
The tool ProtonUp-qt will also let change the setting per game as long as steam is closed. Just open “game list” and set the proton version per game.