| THE KENSICO CEMETERY | Valhalla | — | $39.2M | 18 |
| Montefiore Einstein Inc | Tarrytown | E21 Health Care | $39.1M | 9 |
| CHEMUNG-SCHUYLER COUNTIES CHAPTER NYSARC | Watkins Glen | — | $39.1M | 3 |
| NYSARC INC CLINTON COUNTY CHAPTER | Plattsburgh | J300 Employment | $39M | 8 |
| AMERICAN FRIENDS OF YESHIVA DMIR INC | Brooklyn | Q123 International, Foreign Affairs & National Security | $39M | 8 |
| JEROME L GREENE FOUNDATION | New York | — | $39M | 2 |
| NEIGHBORHOOD DEFENDER SERVICE INC | New York | — | $38.9M | 10 |
| FEEDMORE WESTERN NEW YORK INC | Buffalo | K31Z Food, Agriculture & Nutrition | $38.8M | 4 |
| GAY MEN'S HEALTH CRISIS INC | New York | G810 Diseases, Disorders & Medical Disciplines | $38.7M | 8 |
| CATHOLIC CHARITIES OF LONG ISLAND | Hicksville | — | $38.7M | 8 |
| CHARTER SCHOOL FOR APPLIED TECHNOLOGIES | Buffalo | B20 Education | $38.7M | 7 |
| OSWEGO COUNTY OPPORTUNITIES INC | Fulton | P200 Human Services | $38.6M | 3 |
| ALBANY LAW SCHOOL | Albany | B500 Education | $38.6M | 10 |
| USWU LOCAL 74 WELFARE FUND | Long Island City | — | $38.5M | 3 |
| TERESIAN HOUSE NURSING HOME CO INC | Albany | E910 Health Care | $38.4M | 5 |
| Columbia University Health Care Inc | New York | E32 Health Care | $38.4M | 6 |
| ABILITIES FIRST INC | Wappingers Falls | J33Z Employment | $38.4M | 8 |
| CDP NORTH AMERICA INC | New York | C60 Environment | $38.4M | 9 |
| ACDS INC | Plainview | — | $38.4M | 7 |
| THE ANNA FREUD CENTRE | Howard Beach | F99Z Mental Health & Crisis Intervention | $38.4M | 0 |
| Halo Network Inc | Amityville | B99 Education | $38.3M | 2 |
| ANTI-DEFAMATION LEAGUE | New York | R600 Civil Rights, Social Action & Advocacy | $38.3M | 0 |
| JEWISH COMMUNITY CENTER OF SI INC | Staten Island | P280 Human Services | $38.3M | 6 |
| NORTHEAST PARENT & CHILD SOCIETY INC | Albany | P33Z Human Services | $38.3M | 7 |
| THE CHAUTAUQUA CENTER INC | Dunkirk | E30 Health Care | $38.2M | 9 |
| LOCAL 272 WELFARE FUND | New York | — | $38.2M | 6 |
| EXTRAORDINARY HOME CARE | Bayside | E60 Health Care | $38.2M | 13 |
| ODYSSEY HOUSE INC | New York | F220 Mental Health & Crisis Intervention | $38.2M | 8 |
| ARCUS FOUNDATION | New York | B82Z Education | $38.1M | 7 |
| ARMENIAN GENERAL BENEVOLENT UNION | New York | — | $38.1M | 6 |
| AIDS SERVICE CENTER OF LOWER | New York | G81Z Diseases, Disorders & Medical Disciplines | $38.1M | 12 |
| UNIVERSITY AT BUFFALO SURGEONS INC | Buffalo | B02 Education | $38.1M | 15 |
| The First Chinese Presbyterian Community | New York | L210 Housing & Shelter | $38.1M | 2 |
| GOUVERNEUR HOSPITAL | Gouverneur | E20 Health Care | $38M | 13 |
| GUIDING EYES FOR THE BLIND INC | Yorktown Heights | P860 Human Services | $37.9M | 14 |
| NEW ALTERNATIVES FOR CHILDREN INC | New York | — | $37.8M | 10 |
| UNITED CEREBRAL PALSY OF QUEENS | Jamaica | G200 Diseases, Disorders & Medical Disciplines | $37.8M | 5 |
| ALZHEIMER'S DRUG DISCOVERY FOUNDATION | New York | V36 Social Science | $37.7M | 8 |
| NEW YORK STRUCTURAL BIOLOGY CENTER INC | New York | U500 Science & Technology | $37.7M | 7 |
| PATHWAYS INC | Corning | P73Z Human Services | $37.6M | 4 |
| INTERAGENCY COUNCIL OF DEVELOPMENTAL | New York | — | $37.5M | 4 |
| OAK ORCHARD COMMUNITY HEALTH CENTERINC | Brockport | E210 Health Care | $37.4M | 9 |
| WESTERN NEW YORK BLOODCARE INC | Buffalo | E32 Health Care | $37.4M | 6 |
| Venture Together Inc | Nanuet | P820 Human Services | $37.4M | 10 |
| EAST HARLEM PILOT BLOCK HDFC INC | New York | L200 Housing & Shelter | $37.3M | 4 |
| BRAM FAMILY FOUNDATION | New York | P20 Human Services | $37.3M | 0 |
| DENTAL BENEFIT FUND OF THE ELECTRICAL INDUSTRY | Flushing | — | $37.3M | 0 |
| COALITION FOR HISPANIC FAMILY SERVICES | Brooklyn | — | $37.3M | 6 |
| THE JOHN A HARTFORD FOUNDATION INC | New York | T21 Philanthropy, Voluntarism & Grantmaking Foundations | $37.2M | 16 |
| NEW HORIZONS RESOURCES INC | Pleasant Valley | — | $37.2M | 9 |
