I'm having a similar problem on my Mac with the GOG version of BG3.
Recently, GOG Galaxy suddenly started giving me two launch options, Rosetta (Intel) and ARM64, which I had never seen before. Since then, I haven't been able to launch the game normally through GOG Galaxy. It either crashes/closes immediately or the launcher disappears after I click to start the game.
I discovered that I can launch the game manually like you, with the executable, and I have the same problem with the missing icons which are the real bugger because the launcher thing is not really a problem to play, but the icons....
I've done all this with no change:
* GOG Verify/Repair
* Deleted LevelCache
* Regenerated graphicSettings.lsx
* Regenerated modsettings.lsx
* Confirmed there is no Mods folder
* Tested with a completely fresh BG3 profile and a brand-new game
* Completely uninstalled and reinstalled BG3
* Tested the clean reinstall before restoring any of my saves
* Used the clean test profile provided to me directly by Larian Support (1280x720, Windowed, Very Low settings)
I've opened support tickets with both Larian and GOG and am waiting to hear back. I'll update here if either of them finds a solution.
Last edited by kilverfox; 2 hours ago.