Part of my grander idea to make The Division more similar to games like Destiny, where each Borough of the city would be utilized in gameplay kinda like planets. Quick rundown of each Borough:

Staten Island: the tutorial area. The JTF still has a solid hold on the exterior of the island when the 2nd wave of SHD Agents arrive. Acts as the Division's staging ground before entering the rest of the city.

Brooklyn: its coast along the New York Harbor is mostly under Division/JTF (collectively referred to as “feds”) control. Like all the Dark Zones, the Cleaners have a vested interest in “cleansing” Brooklyn's, centered on East Flatbush up to Bedford Stuyvesant. The northern coast along the East River has been occupied by LMB scout forces attempting to expand beyond Lower Manhattan.

Queens: The most hotly contested Borough, in part thanks to it containing both major airports for the city, JFK and LaGuardia. The northern coast near Rikers Island is, naturally, under Riker control, as they're using the old prison island as a fortress and a choke point on the East River. To the south, JFK Airport has been seized by the LMB to utilize as a forward operating base, though the feds are rapidly encroaching on it from the East. Meanwhile, Long Island City has underwent something of an invasion by Cleaners crossing from Midtown Manhattan heading to the Queens Dark Zone in Jackson Heights.

Bronx: Similar to Staten Island, Bronx's proximity to the mainland has allowed greater federal presence. The southern coast along the East River closest to Rikers Island is controlled by the Rikers, while the DZ near Williamsbridge is host to a small Cleaner expeditionary force.

Upper Manhattan: Ground zero of the Dollar Flu. While the entire city is rife with the sickness, Upper Manhattan is probably where it is most contagious thanks to Central Park being converted into a mass burial ground for most of NYC's dead. The Division has a minor presence in Fort Washington via The Bronx, but once you get close to Central Park and the Manhattan DZ, it becomes Cleaner haven. The island reeks of smoke, fire, gas, and death. The LMB attempts incursions from the south, but otherwise Upper Manhattan is almost entirely under Cleaner control.

Lower Manhattan: A complete 180 from the anarchy and filth of its northern counterpart, the Last Man Battalion have walled off the southern half of the island and converted it into a fascistic police state. The streets are mostly clean, and no other factions besides the occasional Rioter or two can be found, but it comes at the cost of the citizens' personal liberties. Their aircraft carrier docked at Whitehall Terminal allows the LMB to also control the Upper New York Harbor.

My rough concept faction map for if D1 was rebooted and took place across all of NYC