So you think Larian will simply let us kill ourselves -- job done?
Probably not for narrative reasons but to say there will be absolutely no way we can get rid of the tadpole is silly. There are literally no limits to magic in D&D. If there is any issue you or your party can't magic away there's always someone else who can...either a god or some other entity. Just need to find the right someone to bargain with. I wouldn't be surprised if in BG3 there are still ways to get rid of the tadpole after embracing a lot of its powers.
Well, there is sometimes more powerful magic that prevents your magic from being effective... And it certainly looks like that is the case.
By the Hells, I suspect that even Raphael might not have been able to extract it.