Stress definitely exacerbates CMT, it also seems to aggravate other neuropathies, so the answer is a fairly unequivocal "yes"!

I am a hiker. Or perhaps should say I was, as even flat trails are becoming challenging. I think some of us are attracted to certain types of activities because they push our limits,or help us deny them? Running is a very physically stressful activity, though, and you might do well to take a break and substitute walking or swimming until this is settled. I have an aunt who had CMT and compulsively practiced yoga into her nineties.