Yep alignments have absolutely nothing to do with story quality. I don't see how removing the alignment system from BG would change the story (perhaps you would need to find some alternative system for companions but that's it). To think otherwise is not giving the writers enough credit imo

Larian's Biggest Oversight, what to do about it, and My personal review of BG3 EA
"74.85% of you stood with the Tieflings, and 25.15% of you sided with Minthara. Good outweighs evil, it seems."