Uh, this may not sound very scientific or analytical, but I'd suggest you just keep meditating, getting deeper and deeper, and this problem will resolve itself.
In my own experience, I often have physical "issues" during meditation. Last week, for instance, I felt my head was being pulled strongly to the left. I resisted for a while, then just let it go. Because I was deeply "under", I had no real idea if my physical head was indeed moving left; but it certainly felt that way. Then, inexplicably, the exact same thing happened on the right side.
I let that one go, too...and the problem suddenly dissolved, resolved, or whatever. It just went away, and hasn't returned.
For some reason, meditation causes a lot of weird physical sensations. I think it's quite normal to be concerned about them. But, if you just keep your focus and don't worry, it seems that 99% of them simply evaporate, in time.
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