12 speeds are very, very sensitive to alignment, especially if the hanger is bent along the back-front axis and not left-right. That is more difficult to see by eye also. Brand new hangers can be bent, and it may have gotten bent in the bike box during transport also.
Another thing is that if the cable and casing are not in good shape and there is extra friction on the cable, it will cause poor shifting that cannot be fixed by adjustment. When diagnosing shifting issues, I always first check the hanger, then check the cable and casing. Even new bikes can have problems with the casing – it may have a kink somewhere, or the ends might not be cleanly cut or frayed.
Personally, I am much more happy with 11 and 10 speeds, and have no plans of getting any 12-speed systems for my own bikes. Not worth the hassle, as there are no mountains where I live.