In 2052, New York is the symbolic center of America, remaining mindful of its past but dedicated towards realizing its future. It is, however, the target of terrorist organizations such as the NSF. The iconic Statue of Liberty on Liberty Island was bombed during this period of unrest in the city. During this year, Battery Park was closed to all unauthorized personnel due to unidentified terrorist action. Soon after this, Brooklyn Naval Shipyards christened a new, state-of-the-art sub pen which was constructed by Bob Page through subsidiaries of his company, Page Industries.
New York is a major location in the game with independent visits. The player begins his first mission on Liberty Island before moving on to Battery Park and Hell's Kitchen. After reporting back to UNATCO, JC returns to Battery Park in order to travels through the Mole People Tunnels to reach LaGuardia Airport. JC Denton's later visits to New York only include missions in Hell's Kitchen.