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I was able to move my Witcher 3 mods from Windows to Linux and the witcher 3 game recompiled the mod scripts for me just fine.
I don’t know if Nexus mod manager will work on Linux (haven’t tried it yet). I’m hoping Proton is already configured for Fallout 4 mods (mod directory locations, environment variables, etc)
Also, make sure your password contains L’s, 1’s, 0’s and O’s in a font deliberately chosen to make them hard to tell apart.