If you adjusted the incidence using the counter-balance as the reference, then you probably mis-adjusted it. Always match the most powerful part of the elevators (the main body). Counter balances that are off a little are a common problem in arfs... I think it winds up being cosmetic.

On mine I needed a multi-point mix to get my elevators to track together because the pre-drilled holes for the control horns were quite different... I even has to use a longer pro-link on one side.