Yes, much like almost every of Wine release. Increasing compatibility is the focus of Wine developement. compatibility issues are bugs, so fixing bugs is the main focus
Proton is only meant to be run inside the Steam container. It does a lot of custom stuff that causes weird bugs when used outside Steam.
Glorious Eggroll was fed up with people using GE-Proton outside of Steam and reporting bugs, so he made Wine-GE so people could get all the fixes but run it outside of Steam