Different rulesets are just different ways to play your character. There are some lore differences between 2nd and 5th edition D&D. Infravision and the way it works comes to mind, as well as story beats around the Drow. But yeah the overall story is unchanged except perhaps inadvertantly. The changes are mostly cosmetic with lots of the races not looking like they stereotypically have looked which has to be explained by lore but which isn't making things not very realistic or immersive to me....
For my part, I see the lore and the ruleset edition (or even the ruleset) as completely different things. Same with the graphics engine and whether it's TB or RTwP. It's not related to the story.
Not that any of those things are related to BG3's ending.
edit: Not that it changes the ending in anyway.
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