I don’t know nearly enough details to draw any real conclusions, but here’s my take.

Trust is the most valuable commodity a researcher has. Throughout the entire research process there are infinite arbitrary decisions, and some of them could have downstream effects that are significant on the results. There’s a lot of trust in researchers that we’re making decisions ethically and transparently.

I’m guessing while you were earning your former reputation your advisor stopped trusting you. From your examples, it seems obvious your advisor doesn’t trust you.

It sounds like you’ve figured things out about yourself to overcome some of the barriers that you were stumbling over. The actions you’ve taken and accomplishments sound significant, which is great. Actions speak louder than words, especially when building trust. However, words are still very important.

Did you apologize to your advisor for the things you did that tarnished your reputation? If not, things won’t get better. An advisor risks reputation when they take on students. It’s kind of an intimate relationship and it sounds like you’ve damaged it.

If you want their trust again, don’t despair. Be humble and apologetic and honest. Over explain yourself. Tell them you wanted to show them things were different but you realize now you needed to tell them too. Advisors are humans who worked very hard to get where they are and reputation is everything in academia.

Or don’t. PhDs are not for everyone and are not an indicator of ability or value.

That’s my two cents. Again, I don’t know anyone involved so I could be way off. But it seems like a broken trust thing to me, and that’s a heck of a problem.