Long Island City is not Manhattan. They do benefit from giving incentives as they are not a robust, energized area. Thus the plastic factory/ superfund site with no jobs.
Long Island City is directly opposite Manhattan (and to reply to the other comment, is most certainly a part of NYC), is extremely lucrative property, and much of it has sat unused largely because property owners have been trying to rezone as residential (where it is worth hundreds of millions an acre). NYC is extremely robust. NYC doesn't need Amazon, and never needed Amazon. And contrary to the claims in the linked letter (a spittle laden diatribe of someone mad that they didn't get their way), there was opposition right at the very outset. Significant opposition. Opposition that Long Island City doesn't want to be Manhattan, for instance.