The alphamegalog of the cities of New York lists the largest city in New York for each letter of the alphabet. In this case, ‘largest’ is based on population within the city proper.

Albany
Buffalo
Cheektowaga
Deer Park
East Meadow
Freeport
Glen Cove
Hempstead
Irondequoit
Jamestown
Kingston
Levittown
Mount Vernon
New York City
Oceanside
Poughkeepsie
Quogue
Rochester
Syracuse
Tonawanda
Utica
Valley Stream
White Plains
(no X)
Yonkers
Zena