| NEW YORK FOUNDLING | New York | P300 Human Services | $237.1M | 9 |
| American Museum of Natural History | New York | A560 Arts, Culture & Humanities | $237.1M | 19 |
| THE CENTER FOR NEW YORK CITY NEIGHBORHOODS INC | New York | L99 Housing & Shelter | $236.8M | 7 |
| NEW PARTNERS INC | New York | T50 Philanthropy, Voluntarism & Grantmaking Foundations | $236.4M | 10 |
| THE FREDERICK FERRIS THOMPSON HOSPITAL | Canandaigua | E220 Health Care | $236.1M | 21 |
| LOCAL 94 94A 94B HEALTH & BENEFIT TRUST FUND IUOE AFL-CIO | New York | — | $231.9M | 5 |
| CLARKSON UNIVERSITY | Potsdam | B430 Education | $230.8M | 21 |
| ADAPT COMMUNITY NETWORK INC | New York | G200 Diseases, Disorders & Medical Disciplines | $229.8M | 9 |
| HUDSON HEADWATERS HEALTH NETWORK | Queensbury | E80Z Health Care | $226.8M | 13 |
| Kenmore Mercy Hospital | Buffalo | E220 Health Care | $225.4M | 24 |
| NEW YORK STATE TEAMSTERS COUNCIL HEALTH & HOSPITAL FUND | Syracuse | Y43 Mutual & Membership Benefit | $224.9M | 1 |
| UNITED WELFARE FUND | New Rochelle | — | $224.5M | 6 |
| Jewish National Fund (Keren Kayemeth Leisrael) Inc | New York | Q300 International, Foreign Affairs & National Security | $224.3M | 10 |
| TRUSTEES OF HAMILTON COLLEGE | Clinton | B420 Education | $223.9M | 16 |
| JUILLIARD SCHOOL | New York | B430 Education | $223.7M | 19 |
| AMERICAN CIVIL LIBERTIES UNION INC | New York | — | $222.1M | 16 |
| Teach for America Inc | New York | B400 Education | $221.4M | 12 |
| CAMBA INC | Brooklyn | S20Z Community Improvement & Capacity Building | $221M | 14 |
| YELED V'YALDA EARLY CHILDHOOD CENTER INC | Brooklyn | B210 Education | $220.7M | 13 |
| JEWISH BOARD OF FAMILY & CHILDREN'S SERVICES INC | New York | P400 Human Services | $219.6M | 13 |
| DISTRICT COUNCIL 37 HEALTH & SECURITY PLAN TRUST | New York | — | $219M | 7 |
| Stony Brook Internists University Faculty Practice Corporation | Stony Brook | E20 Health Care | $218.5M | 8 |
| Northern Dutchess Hospital | Rhinebeck | E22Z Health Care | $218.4M | 12 |
| SIENA COLLEGE | Loudonville | B420 Education | $216.3M | 15 |
| PEOPLE INC | Williamsville | P82Z Human Services | $216.1M | 9 |
| AUBURN COMMUNITY HOSPITAL | Auburn | E220 Health Care | $215.1M | 10 |
| UNITED FEDERATION OF TEACHERS LOCAL 2 | New York | — | $214.4M | 87 |
| CULINARY INSTITUTE OF AMERICA | Hyde Park | B30 Education | $213.8M | 14 |
| ST LAWRENCE UNIVERSITY | Canton | B42 Education | $211.6M | 14 |
| COMMUNITY ASSISTANCE RESOURCES & EXTENDED SERVICES INC | New York | P20 Human Services | $211.3M | 7 |
| SUCCESS ACADEMY CHARTER SCHOOLS INC | New York | B990 Education | $211M | 12 |
| CITY HARVEST INC | Brooklyn | K30Z Food, Agriculture & Nutrition | $210M | 11 |
| NYCHA I HOUSING DEVELOPEMENT FUND CORPORATION | New York | L20 Housing & Shelter | $209M | 6 |
| CORNING HOSPITAL | Corning | E220 Health Care | $208.6M | 15 |
| Rising Ground Inc | New York | P20 Human Services | $207.8M | 10 |
| INTERNATIONAL BROTHERHOOD OF TRADE UNIONS HEALTH AND WELFARE FUND | Carle Place | Y430 Mutual & Membership Benefit | $207.2M | 7 |
| HISPANIC INFORMATION AND TELECOMMUNICATIONS NETWORK INC | Brooklyn | — | $207M | 12 |
| GIVEDIRECTLY INC | New York | P60 Human Services | $206.8M | 9 |
| THE GOLDMAN SACHS CHARITABLE GIFT FUND | New York | T30 Philanthropy, Voluntarism & Grantmaking Foundations | $206.6M | 0 |
| Manhattan College | Riverdale | B430 Education | $206.1M | 16 |
| NATURAL RESOURCES DEFENSE COUNCIL INC | New York | C300 Environment | $204.3M | 20 |
| AMALGAMATED NATIONAL HEALTH FUND | White Plains | — | $204.1M | 7 |
| 1199 SEIU UNITED HEALTHCARE WORKERS EAST | New York | — | $203.8M | 89 |
| MERCY UNIVERSITY | Dobbs Ferry | B420 Education | $202.7M | 19 |
| FEINBERG GRADUATE SCHOOL OF THE WEIZMANN INSTITUTE OF SCIENCE | New York | B500 Education | $201.3M | 10 |
| MYRIAD USA INC | New York | Q300 International, Foreign Affairs & National Security | $200.5M | 7 |
| CENTRAL PARK CONSERVANCY INC | New York | N320 Recreation & Sports | $200.2M | 13 |
| OLEAN GENERAL HOSPITAL | Olean | E220 Health Care | $199.9M | 17 |
| BLUE MERIDIAN PARTNERS INC | New York | P12 Human Services | $199.5M | 16 |
| THE AMERICAN UNIVERSITY IN CAIRO | New York | B43 Education | $199.1M | 13 |
