| ROCHESTER REGIONAL HEALTH | Rochester | E21 Health Care | $41.1M | 5 |
| Stony Brook Orthopedic Associates University Faculty Practice Corporation | Stony Brook | E20 Health Care | $41M | 9 |
| THE COMMUNITY HOSPICE INC | Albany | P74Z Human Services | $41M | 15 |
| NYSARC INC - WARREN WASHINGTON & | Queensbury | — | $40.9M | 2 |
| CANDID | New York | T500 Philanthropy, Voluntarism & Grantmaking Foundations | $40.9M | 10 |
| UNIVERSITY AT BUFFALO PEDIATRIC | Buffalo | E31 Health Care | $40.8M | 12 |
| RDWA - 8 INSURANCE & TRUST FUND | Long Island City | — | $40.8M | 4 |
| EAST END DISABILITY ASSOCIATES INC | Riverhead | P80 Human Services | $40.7M | 0 |
| HOSPICE BUFFALO INC | Cheektowaga | P74Z Human Services | $40.7M | 14 |
| URBAN PATHWAYS INC | New York | L410 Housing & Shelter | $40.6M | 7 |
| ACMH INC | New York | — | $40.6M | 7 |
| THE YOUNG MEN'S CHRISTIAN ASSOCIATION OF THE CAPITAL DISTRICT (4416) | Albany | P27Z Human Services | $40.5M | 5 |
| EIHAB HUMAN SERVICES NEW JERSEY INC | Springfield Gardens | L20 Housing & Shelter | $40.5M | 3 |
| METROPOLITAN NEW YORK COORDINATING | New York | P200 Human Services | $40.5M | 7 |
| UPSTATE NEW YORK TRANSPLANT SERVICES | Williamsville | — | $40.4M | 9 |
| HELEN KELLER SERVICES | Brooklyn | P860 Human Services | $40.4M | 8 |
| ROBERT RAUSCHENBERG FOUNDATION | New York | A90 Arts, Culture & Humanities | $40.3M | 1 |
| AMERICANS FOR OXFORD INC | New York | B43I Education | $40.3M | 0 |
| CABS HOME ATTENDANT SERVICE INC | Brooklyn | P44Z Human Services | $40.2M | 2 |
| KENDAL ON HUDSON | Sleepy Hollow | E91 Health Care | $40.2M | 9 |
| ST JOHN'S HEALTH CARE CORPORATION | Rochester | E910 Health Care | $40.2M | 11 |
| THE FREEMAN FOUNDATION | New York | — | $40.2M | 7 |
| THE UNIVERSITY CLUB | New York | — | $40.1M | 6 |
| STEPHEN GAYNOR SCHOOL | New York | B28Z Education | $40.1M | 7 |
| PLANNED PARENTHOOD ACTION FUND INC | New York | E01 Health Care | $40M | 11 |
| WESLEY HEALTH CARE CENTER INC | Saratoga Springs | E910 Health Care | $40M | 10 |
| MOSAIC HEALTH INC | Rochester | E32Z Health Care | $40M | 12 |
| PINELAWN CEMETERY | Farmingdale | — | $40M | 20 |
| FRACTURED ATLAS INC | New York | A65 Arts, Culture & Humanities | $39.9M | 1 |
| FORESTDALE INC | Forest Hills | P320 Human Services | $39.9M | 9 |
| Worldwide Friends Foundation | New York | Q33 International, Foreign Affairs & National Security | $39.9M | 2 |
| The Commonwealth Fund | New York | T21 Philanthropy, Voluntarism & Grantmaking Foundations | $39.8M | 3 |
| MARY CARIOLA CHILDREN'S CENTER INC | Rochester | — | $39.8M | 7 |
| FERNCLIFF NURSING HOME COMPANY INC | Rhinebeck | E910 Health Care | $39.8M | 8 |
| AFFILIATES RISK MANAGEMENT SERVICESINC | New York | S50 Community Improvement & Capacity Building | $39.8M | 9 |
| HOUSE OF THE GOOD SHEPHERD | Utica | P300 Human Services | $39.8M | 9 |
| ACTIVE RETIREMENT COMMUNITY INC | South Setauket | L22 Housing & Shelter | $39.8M | 7 |
| ISLAND HARVEST LTD | Melville | P20Z Human Services | $39.7M | 6 |
| SAINT DAVID'S SCHOOL | New York | — | $39.7M | 8 |
| DENTCARE DELIVERY SYSTEMS INC | New Hyde Park | — | $39.6M | 9 |
| BOARD OF JEWISH EDUCATION INC | New York | X30Z Religion-Related | $39.5M | 10 |
| PAUL SMITHS COLLEGE | Paul Smiths | B420 Education | $39.5M | 6 |
| Heritage Financial Credit Union | Middletown | W61 Public & Societal Benefit | $39.4M | 26 |
| THE OSBORNE ASSOCIATION INC | Bronx | — | $39.4M | 11 |
| INTREPID MUSEUM FOUNDATION INC | New York | A500 Arts, Culture & Humanities | $39.4M | 18 |
| MOUNT VERNON NEIGHBORHOOD HEALTH CENTER | Mount Vernon | E320 Health Care | $39.4M | 8 |
| BROOKLYN COMMUNITY FOUNDATION | Brooklyn | T21 Philanthropy, Voluntarism & Grantmaking Foundations | $39.3M | 3 |
| SOCIAL SERVICE EMPLOYEES UNION | New York | — | $39.3M | 6 |
| ELMIRA COLLEGE | Elmira | B430 Education | $39.3M | 10 |
| UNITED HOME FOR AGED HEBREWS | New Rochelle | E91Z Health Care | $39.2M | 9 |
