.002/2 of taper is rather large. Even if bearings were totally shot, I'd expect moving the headstock to change the taper on a turned shaft. I'm uncertain why the tailstock comes into the discussion when trying to sort headstock alignment.
.002 in 2" is miserable to work with.
I am hoping that it shows the lathe is actually of turning a straight shaft, and not some other undiscovered problem.
I think some photographs of what is being adjust and how things are being inspected would be helpful. Something is being lost in communication. It's simply not possible to change the angle of the headstock relative to the bed and not see a change in taper.
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