Does anyone else’s body react to someone who hurt them, even years later and even when they’ve changed?

I’m trying to understand something and I don’t have a name for it, so I’m hoping someone here recognizes it.

A few years ago I was in an on-off relationship that was pretty toxic. Early on, there were a couple of incidents where she was physically rough with me in a way that crossed a line. It stopped, it never happened again, and honestly she has changed a lot since then - she’s genuinely a good person now, she’s aware of what happened, and she’s sorry. On paper I have nothing to hold against who she is today.

But my body hasn’t caught up. When I’m around her for longer, I get this awful feeling in my stomach, almost nausea mixed with anger. I can’t stand her touch - when she hugs me I can last a few seconds and then I have to pull away. Certain sounds set me off intensely, especially specific ones tied to her. Even when she just moves her hands, with no sound at all, my body goes into fight-or-flight. My mind knows she’s safe now. My body reacts like she isn’t.

The strange part is talking it out didn’t fix it. I told her how much she hurt me, she acknowledged it, she apologized - and none of it lowered the physical reaction at all.

Is this something others have experienced? That the body holds onto someone as “not safe” even after the person has genuinely changed and even after you’ve said everything out loud? I’m in therapy and planning to bring this to my therapist, I’m mostly just trying to understand if this is a known thing and whether it eases with time.