Atlantic Yards, Hudson Yards, 1WTC, MetroTech, Yankee Stadium... all of these projects, and many more, were negotiated and ultimately included large financial incentives or subsidies by various governments to the developers and to the big business tenants.
Virtually every big bank has, at some point, threatened to move out of NYC, or at least large quantities of back-office, technology and operations staff. It's all to get tax benefits and concessions from the city and state governments.
The idea that every other NYC business is paying their "fair share" and Amazon was expecting, or getting, special treatment, is ludicrous.