There are some good residencies that favor fmg's in NYC, but they are mostly located in the outer boroughs (Brooklyn, Queens, the Bronx). Those are places that most AMG's avoid because either they are not "pretigious" enough or they simply dont like the areas. Two fmg friendly hospitals with residencies in various specialties that i know of are Lincoln Hospital in The Bronx and Coney Island hospital in Brooklyn.
Go to the FMG forums or do a search, I'm sure there is lots of information around dealing with this topic.