| CONSUMER DIRECTED CHOICES INC | Albany | P82 Human Services | $90.5M | 7 |
| THE CARNEGIE HALL CORPORATION | New York | A610 Arts, Culture & Humanities | $90.5M | 15 |
| BROOKLYN LAW SCHOOL | Brooklyn | B500 Education | $90.4M | 16 |
| UNCOMMON SCHOOLS INC | New York | B90 Education | $90.3M | 11 |
| NEW YORK EHEALTH COLLABORATIVE INC | Albany | E05 Health Care | $90.3M | 10 |
| THE STRONG-CUEVAS SCULPTURE FOUNDATION | Lynbrook | A99 Arts, Culture & Humanities | $89.9M | 4 |
| NEW YORK CITY BALLET INC | New York | A630 Arts, Culture & Humanities | $89.3M | 11 |
| BROOKLYN DEFENDER SERVICES | Brooklyn | R20 Civil Rights, Social Action & Advocacy | $89.2M | 7 |
| CARTHAGE AREA HOSPITAL | Carthage | E22Z Health Care | $89.2M | 12 |
| CATHOLIC CHARITIES COMMUNITY SERVICES ARCHDIOCESE OF NEW YORK | New York | — | $89M | 7 |
| DEMOCRACY PREP NEW YORK CHARTER SCHOOLS | Bronx | B24 Education | $88.8M | 12 |
| THE ARC JEFFERSON-ST LAWRENCE | Watertown | P820 Human Services | $88.7M | 8 |
| LIFEPLAN NY INC | Utica | P20 Human Services | $88.6M | 11 |
| The J Baker Foundation Inc | New York | T22 Philanthropy, Voluntarism & Grantmaking Foundations | $88.4M | 0 |
| PLANNED PARENTHOOD OF GREATER NEW YORK INC | New York | E420 Health Care | $88.4M | 13 |
| JEFF-LEWIS ET AL SCH EMP HC PLAN | Clayton | — | $88.3M | 0 |
| ASSOCIATION FOR COMPUTING MACHINERY INC | New York | U030 Science & Technology | $88.3M | 8 |
| SOLOMON R GUGGENHEIM FOUNDATION | New York | A510 Arts, Culture & Humanities | $88.2M | 12 |
| BANK STREET COLLEGE OF EDUCATION | New York | B500 Education | $88.2M | 15 |
| Ohel Childrens Home & Family Services Inc | Brooklyn | P70 Human Services | $88.1M | 9 |
| AMERICAN JEWISH COMMITTEE | New York | R200 Civil Rights, Social Action & Advocacy | $88.1M | 13 |
| THE ACADEMY CHARTER SCHOOL | Hempstead | B29 Education | $87.8M | 12 |
| BIRCH FAMILY SERVICES INC | New York | P200 Human Services | $87.8M | 9 |
| Metal Trades Branch Local 638 Welfare Fund | Long Island City | — | $87.7M | 9 |
| CHILD MIND INSTITUTE INC | New York | F01 Mental Health & Crisis Intervention | $87.6M | 11 |
| JEWISH HOME LIFECARE MANHATTAN | New York | E910 Health Care | $87.3M | 8 |
| NATIONAL URBAN LEAGUE INC | New York | P220 Human Services | $87.1M | 6 |
| INTERBOROUGH DEVELOPMENTAL AND CONSULTATION CENTER INC | Brooklyn | F30Z Mental Health & Crisis Intervention | $87.1M | 19 |
| Hartwick College | Oneonta | B420 Education | $87M | 11 |
| PEPSICO EMPLOYEES LONG TERM DISABILITY BENEFIT TRUST | Purchase | — | $86.7M | 0 |
| SULLIVAN-ORANGE-DUTCHESS COUNTIES CHAPTER - NYSARC INC | Monticello | — | $86.4M | 7 |
| Independent Group Home Living Program Inc | Manorville | P730 Human Services | $86.4M | 11 |
| The H & F Baker Foundation Inc | New York | T20 Philanthropy, Voluntarism & Grantmaking Foundations | $86.2M | 0 |
| Mount Saint Mary College | Newburgh | B430 Education | $86.2M | 10 |
| ELIZABETHTOWN COMMUNITY HOSPITAL | Elizabethtown | E22Z Health Care | $86M | 13 |
| TRINITY EPISCOPAL SCHOOL | New York | B200 Education | $86M | 8 |
| MANHATTANVILLE UNIVERSITY | Purchase | B420 Education | $85.6M | 14 |
| RAINFOREST ALLIANCE INC | New York | — | $85.5M | 11 |
| AMSTERDAM NURSING HOME CORPORATION (1992) | New York | E910 Health Care | $85.5M | 12 |
| CROHN'S & COLITIS FOUNDATION INC | New York | G70Z Diseases, Disorders & Medical Disciplines | $85.2M | 13 |
| THE ROSALIND AND JOSEPH GURWIN JEWISH GERIATRIC CENTER OF LONG ISLAND INC | Commack | E910 Health Care | $84.8M | 5 |
| GENESEE REGION HOME CARE ASSOCIATION INC | Rochester | E92Z Health Care | $84.2M | 11 |
| PARKINSON'S FOUNDATION INC | New York | H800 Medical Research | $84.2M | 14 |
| MDRC | New York | J200 Employment | $83.9M | 10 |
| THE CENTRAL EUROPEAN UNIVERSITY | New York | Q300 International, Foreign Affairs & National Security | $83.8M | 0 |
| BESTSELF BEHAVIORAL HEALTH INC | Buffalo | — | $83.4M | 7 |
| ROUNDABOUT THEATRE COMPANY INC | New York | A650 Arts, Culture & Humanities | $83.2M | 11 |
| THE GREAT ISLAND FOUNDATION | New York | T20 Philanthropy, Voluntarism & Grantmaking Foundations | $83.1M | 0 |
| ROYAL CHARTER PROPERTIES EAST INC | New York | E110 Health Care | $83.1M | 10 |
| EXCELSIOR UNIVERSITY | Albany | B42Z Education | $83M | 16 |
