The game sunshineverse might fit your standards if you have any interest in AUs. Most characters get to keep just about all their abilities coming in, since the canon the game is set in is kind of insanely godmode anyway.

So, if any of your characters becoming ninja in the Naruto setting (but not the timeline, the timeline is drastically different) interests you at all, I thank you for looking! And if not, well, I'm pleased to meet you all the same.