I'm having the exact same issue, Ive kinda narrowed it down to the game having issues with actually unsubscribing from the mods you've downloaded in BG3 to the subscriptions on mod.io, I've checked the actual website for me to find that I wasnt subscribed to anything, and to test I subscribed to one on the website, relaunched the game after nuking my mods list and BAM there it was along with every single other mod I've downloaded in game. Hopefully someone has more insight to this
