PowerA made a wireless GC controller for Switch. I got one and paired it with my Steamdeck. Works fine.
Also, for the Metroid Prime's, if you're not too hung up on playing it the original way, look into Primehack. It's a modded Dolphin emulator with specific FPS controls for Metroid Prime. There are packages for Linux available. I think the one that worked best for me was the flatpak version.