RE: effect of down incidence
Well, if you used the thrust line as your datum and the wing is negative to that line then you've definetly got a mess on your hands. Either that or there's a significant amount of upthrust.
It sure sounds like the wing saddle is at fault. But just in case did you measure the stab leading and trailing edge as well? If not then put the elevator to dead neutral trim and measure it and the wing and let us know what you set to level if it was not the thrust line. GIve us the numbers so we can figure out the angles and suggest what needs changing if anything. Also what model it is or what sort of model it is.