Yeah, my previously sprained ankle has some nerve pinching going on in there but only when I do soleus stretching (bent knee). Gastroc (straight leg) seems to be fine, but then again you need the bent knee ankle flexibility in Oly so...
It may not necessarily be hypermobility = bad mobility the other way. Could be. But could also just be not-so-great genetic bone structure. No way to really tell I think.
I would try to keep on stretching it then ice it down to prevent any inflammation. At least that's what I'm going to keep on trying. Do the soleus stretch and get down in an asian squat and move around. That seems to work the best from my experience.