Totally lost but that may be just because the OP was a long single paragraph and I just can't with that.
You believe your BB threading isn't aligned because you have mild binding. OK
Here's the secret - that's not a big deal.
Take it to any shop with frame tools and have them chase and face the BB. Yes even on a carbon bike. It's a non-issue. Super common but that's also why we have tools. I clean up every BB on every bike we do. Including pressfit. The tools exist. Knowledgeable people use them.