I totally understand this. Been there, done that! I spent the better part of a year dealing with plantar fasciitis and that experience was clouding everything.
One thing that I realized was that I was spending a lot of energy (both mental and physical) on that fear - energy that would be put to better use doing something like, oh, running. It wasn't helping me and therefore it needed to be dealt with. My mental couch suggested approaching runs as "I wonder how this is going to feel" or "let's see how this goes" rather than either a) prejudging how a run is going to go (i.e. "this is going to hurt because it has in the past") or b) making little discomforts out to be the start of a full-blown flare. I also started to practice assessing what my body was telling me without letting my brain get involved. This has helped me figure out what is pain, what is usual soreness, and what is just that little gremlin in my head trying to convince me to stop.