| Fordham Museum of Greek, Etruscan, and Roman Art | Bronx | Art | N | 3 | 2 | 3 |
| Hall of Fame for Great Americans | Bronx | Hall of fame | N | 5 | 3 | 5 |
| Bartow-Pell Mansion Museum | Bronx | Historic house | Y | 2 | 3 | 2 |
| Valentine-Varian House / Museum of Bronx History | Bronx | Historic house | Y | 2 | 2 | 2 |
| Bronx Museum of the Arts | Bronx | Art | Y | 4 | 3 | 4 |
| Bronx River Art Center | Bronx | Art | Y | 2 | 3 | 2 |
| City Island Nautical Museum | Bronx | History | Y | 3 | 2 | 2 |
| Derfner Judaica Museum | Bronx | Ethnic - Jewish | Y | 3 | 3 | 3 |
| Hostos Center for the Arts and Culture | Bronx | Art | Y | 3 | 2 | 3 |
| Lehman College Art Gallery | Bronx | Art | Y | 4 | 3 | 3 |
| Maritime Industry Museum | Bronx | Maritime | Y | 4 | 5 | 3 |
| New York Botanical Garden | Bronx | Botanical garden | Y | 3 | 4 | 4 |
| Edgar Allan Poe Cottage | Bronx | Historic house | Y | 2 | 3 | 3 |
| Van Cortlandt House Museum | Bronx | Historic house | Y | 3 | 4 | 3 |
| Wave Hill | Bronx | Botanical garden, art, historic house | Y | 5 | 5 | 5 |
| Woodlawn Cemetery | Bronx | History | Y | 4 | 4 | 5 |
| Bronx Children's Museum | Bronx | Children's | Y | | | |
| BLDG 92 at Brooklyn Navy Yard | Brooklyn | Multiple | N | 4 | 3 | 4 |
| Brooklyn Historical Society | Brooklyn | History | N | 3 | 3 | 3 |
| Lefferts Historic House | Brooklyn | Historic house | N | 2 | 3 | 2 |
| Wyckoff House Museum | Brooklyn | Historic house | N | 3 | 3 | 5 |
| A.I.R. Gallery | Brooklyn | Art | Y | 2 | 2 | 2 |
| BRIC House | Brooklyn | Art | Y | 2 | 3 | 3 |
| Brooklyn Botanic Garden | Brooklyn | Botanic garden | Y | 2 | 2 | 3 |
| Brooklyn Museum | Brooklyn | Art | Y | 3 | 5 | 4 |
| City Reliquary | Brooklyn | History | Y | 3 | 4 | 3 |
| Coney Island Museum | Brooklyn | Amusement | Y | 3 | 3 | 4 |
| Enrico Caruso Museum of America | Brooklyn | History | Y | 3 | 3 | 3 |
| Green-Wood Cemetery | Brooklyn | History | Y | 4 | 4 | 4 |
| Harbor Defense Museum | Brooklyn | Military | Y | 4 | 3 | 4 |
| Museum of Contemporary African Diasporan Arts | Brooklyn | Culture | Y | 2 | 3 | 2 |
| Museum of Food and Drink | Brooklyn | Culture | Y | 3 | 3 | 3 |
| New York Transit Museum | Brooklyn | Transportation | Y | 3 | 4 | 4 |
| Old Stone House | Brooklyn | Historic house | Y | 2 | 3 | 2 |
| Williamsburg Art & Historical Center | Brooklyn | Art | Y | 2 | 3 | 2 |
| Waterfront Museum | Brooklyn | Maritime | Y | 2 | 3 | 2 |
| Weeksville Heritage Center | Brooklyn | History | Y | 3 | 2 | 3 |
| Amud Aish Memorial Museum (KHEC) | Brooklyn | History | Y | | | |
| Brooklyn Children's Museum | Brooklyn | Children's | Y | 2 | 3 | 2 |
| Jewish Children's Museum | Brooklyn | Children's | Y | | | |
| China Institute | Manhattan | Art | N | 3 | 3 | 3 |
| Children's Museum of the Arts | Manhattan | Children's | N | 3 | 4 | 3 |
| Federal Reserve Bank of New York Museum | Manhattan | Finance / History | N | 3 | 5 | 4 |
| Museum of the American Gangster | Manhattan | History | N | 2 | 4 | 2 |
| General Grant National Memorial | Manhattan | History | N | 4 | 3 | 5 |
| Mmuseumm | Manhattan | Culture | N | 3 | 4 | 3 |
| New York School of Interior Design Gallery | Manhattan | Art | N | 1 | 2 | 2 |
| Onassis Cultural Center | Manhattan | Art | N | 3 | 3 | 4 |
| Park Avenue Armory | Manhattan | Art | N | 3 | 3 | 4 |
| New York City Police Museum | Manhattan | History | N | 3 | 2 | 2 |
| Roosevelt House | Manhattan | Historic House | N | 3 | 3 | 3 |
| Studio Museum in Harlem | Manhattan | Art | N | 4 | 3 | 3 |
| The Frick Collection | Manhattan | Art | N | 5 | 5 | 5 |
| 9/11 Tribute Museum | Manhattan | History | Y | 3 | 2 | 3 |
| African Burial Ground National Monument | Manhattan | History | Y | 3 | 1 | 4 |
| Abrons Arts Center | Manhattan | Art | Y | 3 | 2 | 2 |
| American Academy of Arts and Letters | Manhattan | Art | Y | 3 | 3 | 3 |
| American Folk Art Museum | Manhattan | Art | Y | 2 | 2 | 2 |
| Americas Society | Manhattan | Art | Y | 3 | 2 | 3 |
| Aperture Foundation | Manhattan | Media | Y | 2 | 3 | 2 |
| Asia Society Museum | Manhattan | Art | Y | 2 | 2 | 2 |
| Austrian Cultural Forum Gallery | Manhattan | Culture | Y | 3 | 3 | 3 |
| Bard Graduate Center Gallery | Manhattan | Art | Y | 3 | 3 | 3 |
| Bernard Museum of Judaica at Temple Emanu-El | Manhattan | Jewish | Y | 3 | 3 | 3 |
| Rose Museum at Carnegie Hall | Manhattan | Music | Y | 2 | 3 | 2 |
| Castle Clinton National Monument | Manhattan | History | Y | 2 | 2 | 2 |
| Center for Architecture | Manhattan | Art | Y | 2 | 2 | 2 |
| Center for Book Arts | Manhattan | Art | Y | 2 | 3 | 3 |
| Center for Jewish History/ Yeshiva University Museum | Manhattan | Ethnic - Jewish | Y | 4 | 3 | 4 |
| Clemente Center | Manhattan | Culture | Y | 2 | 2 | 2 |
| Children's Museum of Manhattan | Manhattan | Children's | Y | 2 | 2 | 2 |
| Columbia University Rare Book & Manuscript Library | Manhattan | Library | Y | 3 | 3 | 3 |
| Cooper Hewitt, Smithsonian Design Museum | Manhattan | Design | Y | 4 | 4 | 4 |
| Czech Center New York | Manhattan | Culture | Y | 2 | 3 | 3 |
| DareDevil Tattoo Museum | Manhattan | Culture | Y | 3 | 3 | 3 |
| Dia: Chelsea | Manhattan | Art | Y | 3 | 3 | 4 |
| Drawing Center | Manhattan | Art | Y | 3 | 3 | 3 |
| Dyckman Farmhouse | Manhattan | Historic house | Y | 3 | 2 | 3 |
| El Museo del Barrio | Manhattan | Art | Y | 2 | 2 | 2 |
| Museum at Eldridge Street | Manhattan | Culture - Jewish | Y | 4 | 3 | 4 |
| Ellis Island National Immigration Museum | Manhattan | History | Y | 5 | 4 | 5 |
| FDNY Fire Zone | Manhattan | Firefighting | Y | 2 | 2 | 1 |
| Federal Hall National Memorial | Manhattan | History | Y | 4 | 3 | 4 |
| New York City Fire Museum | Manhattan | History | Y | 4 | 3 | 4 |
| Fraunces Tavern Museum | Manhattan | History | Y | 3 | 3 | 4 |
| Frick Madison | Manhattan | Art | Y | 5 | 5 | 5 |
| Governors Island National Monument | Manhattan | History | Y | 3 | 2 | 3 |
| Gracie Mansion | Manhattan | Historic house | Y | 3 | 3 | 4 |
| Grey Art Gallery | Manhattan | Art | Y | 2 | 3 | 3 |
| Renee & Chaim Gross Foundation | Manhattan | Art | Y | 4 | 4 | 4 |
| Ground Zero Museum Workshop | Manhattan | History | Y | 1 | 1 | 1 |
| Guggenheim Museum | Manhattan | Art | Y | 3 | 3 | 2 |
| Hamilton Grange National Memorial | Manhattan | Historic house | Y | 4 | 3 | 5 |
| Hebrew Union College-Jewish Institute of Religion Museum | Manhattan | Ethnic - Jewish | Y | 3 | 3 | 2 |
| Hispanic Society of America | Manhattan | Art | Y | 2 | 1 | 2 |
| Hunter College Art Galleries | Manhattan | Art
| Y | 3 | 3 | 2 |
| International Center of Photography | Manhattan | Art - Photography | Y | 3 | 3 | 3 |
| International Print Center | Manhattan | Art | Y | 2 | 3 | 3 |
| Intrepid Sea, Air, and Space Museum | Manhattan | Science | Y | 4 | 4 | 5 |
| Japan Society Gallery | Manhattan | Culture | Y | 3 | 3 | 3 |
| National Jazz Museum in Harlem | Manhattan | Music | Y | 2 | 2 | 1 |
| Jewish Museum | Manhattan | Ethnic - Jewish | Y | 3 | 3 | 3 |
| Judd Foundation | Manhattan | Art | Y | 4 | 4 | 3 |
| Kehila Kedosha Janina Museum | Manhattan | Culture | Y | 3 | 2 | 2 |
| Korea Society Gallery | Manhattan | Art | Y | 1 | 1 | 1 |
| Korean Cultural Center Gallery | Manhattan | Art | Y | 3 | 2 | 3 |
| Leslie-Lohman Museum of Gay and Lesbian Art | Manhattan | Art | Y | 3 | 4 | 3 |
| Museum of Arts and Design | Manhattan | Art | Y | 4 | 4 | 4 |
| Madame Tussauds | Manhattan | Wax museum | Y | 2 | 5 | 2 |
| Museum of the City of New York | Manhattan | History | Y | 5 | 4 | 5 |
| Merchant’s House Museum | Manhattan | Historic house | Y | 3 | 4 | 4 |
| Museum of Chinese in America | Manhattan | Culture - Chinese American | Y | 4 | 3 | 4 |
| Museum of Modern Art (MoMA) | Manhattan | Art | Y | 5 | 5 | 5 |
| Museum of Mathematics | Manhattan | Science | Y | 4 | 4 | 3 |
| The Morgan Library & Museum | Manhattan | Art | Y | 5 | 4 | 5 |
| Morris-Jumel Mansion | Manhattan | Historic house | Y | 3 | 3 | 3 |
| Museum of Reclaimed Urban Space (MoRUS) | Manhattan | History | Y | 2 | 3 | 1 |
| Mossman Lock Collection | Manhattan | Technology | Y | 4 | 3 | 3 |
| Mount Vernon Hotel | Manhattan | Historic house | Y | 3 | 3 | 3 |
| Museum at FIT | Manhattan | Textile | Y | 4 | 3 | 3 |
| Museum of American Illustration | Manhattan | Art | Y | 4 | 4 | 4 |
| Museum of Jewish Heritage: A Living Memorial to the Holocaust | Manhattan | Culture - Jewish | Y | 5 | 2 | 4 |
| Museum of Sex | Manhattan | Sex | Y | 1 | 4 | 2 |
| American Kennel Club Museum of the Dog | Manhattan | Culture | Y | 3 | 3 | 2 |
| National September 11 Memorial & Museum | Manhattan | History | Y | 4 | 1 | 3 |
| National Track and Field Hall of Fame | Manhattan | Sports | Y | 4 | 3 | 3 |
| American Museum of Natural History | Manhattan | Natural history | Y | 5 | 4 | 5 |
| Neue Galerie | Manhattan | Art | Y | 4 | 4 | 4 |
| New Museum | Manhattan | Art | Y | 3 | 4 | 3 |
| New York Earth Room | Manhattan | Art | Y | 2 | 2 | 5 |
| New-York Historical Society | Manhattan | History | Y | 4 | 5 | 4 |
| American Numismatic Society Gallery | Manhattan | Numismatic | Y | 3 | 2 | 2 |
| New York Public Library (Stephen A. Schwarzman Building) | Manhattan | Multiple | Y | 5 | 5 | 4 |
| New York Public Library for the Performing Arts | Manhattan | Art | Y | 3 | 4 | 4 |
| Parsons – The New School Gallery | Manhattan | Art | Y | 4 | 3 | 3 |
| Poster House | Manhattan | Art | Y | 4 | 4 | 4 |
| Pratt Manhattan Gallery | Manhattan | Art | Y | 2 | 3 | 3 |
| Milton Resnick and Pat Passlof Foundation | Manhattan | Art | Y | 3 | 2 | 2 |
| Rubin Museum of Art | Manhattan | Art | Y | 5 | 3 | 5 |
| Schomburg Center for Research in Black Culture | Manhattan | African American | Y | 3 | 4 | 4 |
| South Street Seaport Museum | Manhattan | Maritime | Y | 2 | 3 | 2 |
| Shirley Fiterman Art Center | Manhattan | Art | Y | 2 | 3 | 3 |
| Skyscraper Museum | Manhattan | Architecture | Y | 4 | 2 | 3 |
| National Museum of the American Indian Heye Center | Manhattan | Native American | Y | 4 | 3 | 3 |
| Cathedral Church of St. John the Divine | Manhattan | Culture | Y | 5 | 4 | 5 |
| Statue of Liberty | Manhattan | History | Y | 3 | 4 | 4 |
| Sugar Hill Children’s Museum of Art and Storytelling | Manhattan | Children's | Y | 3 | 4 | 3 |
| Swiss Institute Contemporary Art New York | Manhattan | Art | Y | 1 | 2 | 1 |
| Lower East Side Tenement Museum | Manhattan | Historic house | Y | 4 | 5 | 4 |
| The Cloisters | Manhattan | Art | Y | 5 | 5 | 5 |
| The Grolier Club | Manhattan | Literary | Y | 4 | 4 | 3 |
| Nicholas Roerich Museum | Manhattan | Art | Y | 3 | 3 | 3 |
| Ukrainian Museum | Manhattan | Ethnic - Ukrainian-American | Y | 2 | 1 | 2 |
| Theodore Roosevelt Birthplace National Historic Site | Manhattan | Historic house | Y | 2 | 3 | 4 |
| Tibet House Gallery | Manhattan | Art | Y | 1 | 2 | 2 |
| Transit Museum at Grand Central Terminal | Manhattan | Transportation | Y | 3 | 2 | 3 |
| Trinity Church | Manhattan | History | Y | 3 | 3 | 4 |
| Ukrainian Institute of America | Manhattan | Art | Y | 3 | 4 | 4 |
| United Nations Headquarters | Manhattan | Historic building | Y | 5 | 4 | 4 |
| Miriam and Ira D. Wallach Art Gallery, Columbia University | Manhattan | Art | Y | 3 | 2 | 3 |
| Westbeth Gallery | Manhattan | Art | Y | 3 | 3 | 4 |
| White Columns | Manhattan | Art | Y | 2 | 3 | 2 |
| Whitney Museum of American Art | Manhattan | Art | Y | 4 | 5 | 5 |
| Fotografiska | Manhattan | Art | Y | 2 | 4 | 2 |
| Museum of Broadway | Manhattan | Culture | Y | 4 | 5 | 3 |
| Jackie Robinson Museum | Manhattan | History | Y | 3 | 2 | 2 |
| Metropolitan Museum of Art | Manhattan | Art | Y | | | |
| Dorsky Gallery | Queens | Art | N | 3 | 3 | 3 |
| Bayside Historical Society | Queens | History | Y | 2 | 3 | 2 |
| Bowne House | Queens | Historic house | Y | 3 | 3 | 2 |
| Fort Totten Visitor’s Center & Water Battery | Queens | Military | Y | 1 | 2 | 2 |
| Godwin-Ternbach Museum | Queens | Art | Y | 3 | 3 | 3 |
| New York Hall of Science | Queens | Science | Y | 3 | 4 | 3 |
| Isamu Noguchi Museum | Queens | Art | Y | 4 | 4 | 5 |
| Jamaica Center for Arts & Learning | Queens | Art | Y | 2 | 2 | 2 |
| King Manor Museum | Queens | Historic house | Y | 3 | 3 | 3 |
| Kingsland Homestead / Queens Historical Society | Queens | Historic house | Y | 2 | 2 | 2 |
| Lewis Latimer House | Queens | Historic house | Y | 4 | 3 | 4 |
| The Living Museum | Queens | Art | Y | 3 | 4 | 5 |
| Louis Armstrong House Museum | Queens | Historic house | Y | 3 | 4 | 4 |
| MoMA PS1 | Queens | Art | Y | 3 | 4 | 4 |
| Museum of the Moving Image | Queens | Media | Y | 4 | 5 | 4 |
| Queens Botanical Garden | Queens | Botanical Garden | Y | 2 | 3 | 2 |
| Queens College Art Center | Queens | Art | Y | 2 | 3 | 1 |
| Queens County Farm Museum | Queens | Farm | Y | 2 | 3 | 3 |
| Queens Museum | Queens | Art | Y | 3 | 4 | 4 |
| SculptureCenter | Queens | Art | Y | 3 | 3 | 3 |
| Socrates Sculpture Park | Queens | Art | Y | 3 | 3 | 3 |
| Vander Ende-Onderdonk House | Queens | Historic house | Y | 2 | 3 | 2 |
| Voelker Orth Museum, Bird Sanctuary, and Victorian Garden | Queens | Historic house | Y | 3 | 3 | 2 |
| Newhouse Center of Contemporary Art | Staten Island | Art | N | 2 | 1 | 2 |
| Alice Austen House | Staten Island | Historic house | Y | 3 | 4 | 4 |
| Conference House | Staten Island | Historic house | Y | 1 | 3 | 2 |
| Fort Wadsworth | Staten Island | Military | Y | 3 | 3 | 4 |
| Garibaldi-Meucci Museum | Staten Island | Ethnic | Y | 3 | 2 | 2 |
| Historic Richmond Town | Staten Island | Historic | Y | 3 | 4 | 3 |
| Jacques Marchais Museum of Tibetan Art | Staten Island | Culture | Y | 2 | 3 | 2 |
| National Lighthouse Museum | Staten Island | History | Y | 3 | 2 | 3 |
| Noble Maritime Collection | Staten Island | Maritime | Y | 4 | 4 | 5 |
| Staten Island Children’s Museum | Staten Island | Children's | Y | 3 | 4 | 3 |
| Staten Island Museum | Staten Island | Multiple | Y | 3 | 3 | 3 |
| Center for Italian Modern Art | Manhattan | Art | Y | 4 | 3 | 3 |
Here is my comprehensive list of all museums in New York City, in searchable, sortable database form. Links will take you to my review (assuming I’ve completed it).