| Syracuse University | 501(c)(3) | 1938 | $1.97 billion | $5.43 billion | 2025-06 |
| Le Moyne College | 501(c)(3) | 1947 | $160.4 million | $450.7 million | 2025-05 |
| Manlius Pebble Hill School | 501(c)(3) | 1971 | $13 million | $24.8 million | 2025-06 |
| Southside Charter School | 501(c)(3) | 2003 | $12.8 million | $1.1 million | 2025-06 |
| Nysernetorg Inc | 501(c)(3) | 1986 | $12.1 million | $24.6 million | 2025-12 |
| Proliteracy Worldwide | 501(c)(3) | 1973 | $11.9 million | $20.8 million | 2025-06 |
| Esf College Foundation Inc | 501(c)(3) | 1964 | $10.6 million | $68.8 million | 2025-06 |
| Aids Community Resources | 501(c)(3) | 1995 | $10.5 million | $4.8 million | 2025-06 |
| Reading League | 501(c)(3) | 2016 | $8.2 million | $11.8 million | 2024-12 |
| Abby Lane Housing Corporation | 501(c)(3) | 2010 | $6.2 million | $31.8 million | 2025-06 |
| Onondaga Community College Foundation Inc | 501(c)(3) | 1985 | $5.8 million | $29.8 million | 2025-08 |
| Onondaga Community College Housing Development Corp | 501(c)(3) | 2004 | $5.6 million | $35.2 million | 2025-08 |
| On Point for College Inc | 501(c)(3) | 2003 | $5.4 million | $3 million | 2025-08 |
| Upstate Properties Development Inc | 501(c)(3) | 2011 | $4.4 million | $37.9 million | 2025-06 |
| Ontech Charter High School | 501(c)(3) | 2018 | $4.1 million | $5.6 million | 2025-06 |
| Terra Science and Education Inc | 501(c)(3) | 2011 | $3.8 million | $11.1 million | 2025-12 |
| Good Life Foundation Inc | 501(c)(3) | 2008 | $3.7 million | $993,854 | 2024-12 |
| Onondaga Community College Association Inc | 501(c)(3) | 2006 | $3.4 million | $6.9 million | 2025-08 |
| Nysernet Net Inc | 501(c)(3) | 1997 | $2.2 million | $20.3 million | 2025-12 |
| Montessori School of Syracuse | 501(c)(3) | 1996 | $2.1 million | $2.1 million | 2025-06 |
| Early Childhood Alliance Onondaga Inc | 501(c)(3) | 2023 | $1.6 million | $880,543 | 2024-12 |
| Alliance for A Green Economy | 501(c)(3) | 2015 | $1.4 million | $2 million | 2024-12 |
| Onondaga Free Library | 501(c)(3) | 1961 | $1.1 million | $3.5 million | 2024-12 |
| Syracuse Hebrew Day School Max Gilbert Hebrew Academy | 501(c)(3) | 1962 | $1.1 million | $1.4 million | 2025-06 |
| Blueprint 15 Inc | 501(c)(3) | 2019 | $879,450 | $5.2 million | 2024-12 |
| Phins Management Inc | 501(c)(3) | 2024 | $640,877 | $4.3 million | 2025-05 |
| All Saints Elementary of Tipperaryhill | 501(c)(3) | 2007 | $624,546 | $103,994 | 2025-07 |
| Mercyworks Incorporated | 501(c)(3) | 1999 | $611,639 | $1.5 million | 2024-12 |
| Central New York School Boards Association Inc | 501(c)(4) | 2000 | $591,681 | $498,620 | 2025-06 |
| Ecostudio Foundation | 501(c)(3) | 2022 | $526,946 | $106,760 | 2024-12 |
| Nys Community Arch Inc | 501(c)(3) | 2022 | $515,736 | $482,465 | 2025-12 |
| Suny College of Environmental Science & Forestry USA | 501(c)(3) | 2018 | $441,972 | $389,835 | 2025-06 |
| Fairmount Community Library Association | 501(c)(3) | 2013 | $424,995 | $804,656 | 2025-12 |
| Friends of Jowonio Inc | 501(c)(3) | 1995 | $387,799 | $789,522 | 2025-06 |
| North Side Learning Center of Syracuse Inc | 501(c)(3) | 2023 | $385,362 | $925,766 | 2025-12 |
| Friends of the Central Library Inc | 501(c)(3) | 1993 | $380,794 | $239,719 | 2025-06 |
| Central and Eastern New York Cooperative Trust | 501(c)(5) | 1999 | $372,958 | $1.9 million | 2025-06 |
| Growing Place Inc | 501(c)(3) | 1979 | $308,695 | $31,978 | 2025-06 |
| Science Teachers Association of New York State Inc | 501(c)(3) | 1968 | $290,824 | $590,226 | 2025-06 |
| Eagle Wings Academy Scholarships and Student Support Inc | 501(c)(3) | 2009 | $189,700 | $41,935 | 2025-06 |
| Boulder Institute of Microfinance | 501(c)(3) | 2005 | $166,285 | $660,368 | 2024-12 |
| Families for Lead Freedom Now | 501(c)(3) | 2023 | $142,554 | $174,298 | 2025-12 |
| Nys Association of Incarcerated Education Programs Inc | 501(c)(3) | 2001 | $134,623 | $74,581 | 2025-06 |
| Home Association of New York Beta Phi Kappa Psi Inc | 501(c)(2) | 1973 | $125,739 | $552,451 | 2025-06 |
| Westhill Central School District Educational Foundation Inc | 501(c)(3) | 2017 | $90,917 | $686,337 | 2025-12 |
| Interreligious Food Consortium | 501(c)(3) | 1986 | $89,189 | $137,345 | 2024-12 |
| The New York State Association of Management Advocates for School | 501(c)(6) | 2013 | $87,492 | $68,161 | 2025-12 |
| Westhill Booster Club Inc | 501(c)(3) | 2011 | $82,271 | $77,548 | 2023-06 |
| Onondaga County Public Library | 501(c)(3) | 1994 | $77,524 | $1.1 million | 2024-12 |
| Haiti Education Mission Inc | 501(c)(3) | 2024 | $77,235 | $109,690 | 2025-12 |
| Literacycny Inc | 501(c)(3) | 1967 | $67,480 | $41,964 | 2025-06 |
| Eastwood Neighborhood Association Inc | 501(c)(3) | 2006 | $56,830 | $14,492 | 2025-09 |
| Syracuse Teachers Trust | 501(c)(3) | 2005 | $55,204 | $102,853 | 2025-06 |
| Bear Road Elementary School Pto | 501(c)(3) | 2023 | $44,408 | $40,266 | 2026-07 |
| Roxboro Road Elementary School Parent Teacher Group | 501(c)(3) | 2004 | $43,894 | $91,951 | 2025-07 |
| Allen Road Elementary Pto | 501(c)(3) | 2003 | $42,497 | $13,300 | 2026-07 |
| Syracuse City School District Educational Foundation | 501(c)(3) | 2003 | $41,065 | $17,602 | 2026-06 |
| New York State Flower Industries Research & Education Fund Inc | 501(c)(3) | 2012 | $27,196 | $244,331 | 2024-12 |
| Empire State Association of Minority Contractors Inc | 501(c)(3) | 2014 | $18,000 | $19,814 | 2025-12 |
| North Syracuse Education Foundation Inc | 501(c)(3) | 2002 | $14,823 | $263,399 | 2025-12 |
| Syracuse University Alumni Association Inc | 501(c)(3) | 1993 | $8,009 | $207,985 | 2025-06 |
| Friends of the North Syracuse Early Education Program Incorporated | 501(c)(3) | 2008 | $7,192 | $34,190 | 2025-07 |
| South Side Newspaper Project Inc | 501(c)(3) | 2012 | $4,650 | $2,642 | 2024-06 |
| Abundant Minds Initiative | 501(c)(3) | 2025 | $0 | $0 | 2025-12 |
| Accessible Computer Learning Inc | 501(c)(3) | 2026 | | | |
| Adventure Leadership Foundation | 501(c)(3) | 2015 | $0 | $0 | 2025-12 |
| Agilitas LLC | 501(c)(3) | 2023 | $0 | $4.7 million | 2024-12 |
| Ahepa Syracuse Foundation Inc | 501(c)(3) | 1998 | | $1 | 2024-12 |
| Alpha Omega Epsilon | 501(c)(7) | 2022 | $0 | $0 | 2025-08 |
| Alumni Association of St Josephs College of Nursing | 501(c)(3) | 2007 | $0 | $0 | 2025-12 |
| And To the Ends of the Earth Inc | 501(c)(3) | 2023 | | $6,124 | 2025-12 |
| Ann Demore Davis Memorial Scholarship Inc | 501(c)(3) | 2019 | $0 | $0 | 2024-12 |
| Architexx | 501(c)(3) | 2015 | $0 | $0 | 2025-12 |
| Association of Certified Fraud | 501(c)(3) | 1995 | $0 | $0 | 2023-08 |
| Black & Gold Athletics Club | 501(c)(3) | 2024 | $0 | $0 | 2024-12 |
| Boundless Books Project | 501(c)(3) | 2023 | | $1,157 | 2024-12 |
| Central New York Bankruptcy Bar Association Inc | 501(c)(6) | 2003 | $0 | $0 | 2021-12 |
| Christopher Collins Memorial Scholarship Fund | 501(c)(3) | 2016 | $0 | $0 | 2025-12 |
| Cny Bankruptcy Bar Association Inc | 501(c)(3) | 2019 | $0 | $0 | 2025-12 |
| Cny Nurses Collaborative To Advance Research & Evidence-Based | 501(c)(3) | 2013 | $0 | $0 | 2023-06 |
| Corcoran Parent Teacher Student Organization | 501(c)(3) | 2018 | $0 | $0 | 2025-08 |
| Cuse Connection Inc | 501(c)(3) | 2018 | $0 | $0 | 2024-12 |
| Delta Torch Foundation | 501(c)(3) | 1996 | $0 | $0 | 2025-12 |
| Division for Culturally and Lignuisticaly Diverse Exceptional | 501(c)(3) | 2025 | $0 | $0 | 2025-12 |
| Edward Smith School Pto Organization | 501(c)(3) | 1998 | $0 | $0 | 2025-07 |
| Elite Esports Organization Inc | 501(c)(3) | 2022 | $0 | $0 | 2025-12 |
| Esf Auxiliary Services Corporation | 501(c)(3) | 2025 | | | |
| Faces of Nottingham Inc | 501(c)(3) | 2014 | $0 | $0 | 2025-12 |
| Friends of Holy Cross School Inc | 501(c)(3) | 2011 | $0 | $0 | 2025-12 |
| Friends of Sany Foundation Inc | 501(c)(3) | 2026 | | | |
| Friends of Syracuse Latin Inc | 501(c)(3) | 2016 | $0 | $0 | 2024-12 |
| Global Pan African Congress Inc | 501(c)(3) | 2022 | $0 | $0 | 2026-04 |
| Henninger High School Pto | 501(c)(3) | 2023 | | | |
| Honor Society of Phi Kappa Phi | 501(c)(3) | 1999 | $0 | $0 | 2026-06 |
| International Reading Association Inc | 501(c)(3) | 2020 | $0 | $0 | 2026-06 |
| Kool Kidz Foundation Inc | 501(c)(3) | 2024 | $0 | $0 | 2025-12 |
| Learning Place Inc | 501(c)(3) | 2003 | $0 | $0 | 2023-06 |
| Light A Candle for Literacy Corp | 501(c)(3) | 2023 | $0 | $0 | 2025-12 |
| Madrasat Al Ihsan School of Excellence | 501(c)(3) | 2004 | | | |
| Minority Investor Inc | 501(c)(3) | 2021 | $0 | $0 | 2024-12 |
| Organization for Psychoeducational Tutoring | 501(c)(3) | 2015 | | $926,137 | 2025-12 |
| Parent Booster USA Inc | 501(c)(3) | 2005 | $0 | $0 | 2025-12 |
| Parent Booster USA Inc | 501(c)(3) | 2005 | $0 | $0 | 2026-07 |
| Pi Lambda Sigma Chapter of Beta Phi Mu | 501(c)(3) | 2014 | $0 | $0 | 2025-12 |
| Preserve the Black Child Inc | 501(c)(3) | 2025 | $0 | $0 | 2025-12 |
| Pride of Syracuse Booster Club Inc | 501(c)(3) | 2026 | $0 | $0 | 2026-06 |
| RRMS PTG Inc | 501(c)(3) | 2024 | $0 | $0 | 2025-12 |
| Roberts Prek - 8 Parent Teacher Organization | 501(c)(3) | 2018 | $0 | $0 | 2024-08 |
| Solvay Elementary School Pto | 501(c)(3) | 2019 | $0 | $0 | 2025-07 |
| St Josephs College of Nursing at St Josephs Hospital Health Center | 501(c)(3) | 2018 | $0 | $0 | 2025-12 |
| Suny College of Environmental Science & Forestry Graduate Studen | 501(c)(3) | 2017 | $0 | $0 | 2025-06 |
| Sustainable Sciences and Technology Foundation Inc | 501(c)(3) | 2016 | $0 | $0 | 2025-12 |
| Syracuse Claims Association | 501(c)(6) | 2025 | | | |
| Syracuse Metronet Inc | 501(c)(3) | 2002 | $0 | $0 | 2024-12 |
| Syracuse Stem Nsbe Inc | 501(c)(3) | 2023 | $0 | $0 | 2024-12 |
| The Chi Pi Foundation Inc | 501(c)(3) | 2026 | | | |
| Thomas and Rosemarie Markoscholarship Foundation | 501(c)(3) | 2007 | $0 | $0 | 2025-12 |
| Tri Region Science and Engineeringfair | 501(c)(3) | 2007 | $0 | $0 | 2025-12 |
| Wcny Foundation Inc | 501(c)(3) | 2011 | $0 | $1 | 2025-06 |
| Westchester Reading Council | 501(c)(3) | 2019 | $0 | $0 | 2024-06 |
| Westhill Elementary Schools Together | 501(c)(3) | 2009 | $0 | $0 | 2025-07 |
| Xi Community Empowerment Advocates Inc | 501(c)(3) | 2010 | $0 | $0 | 2025-06 |
| Zeta Phi Beta Sorority | 501(c)(7) | 1960 | $0 | $0 | 2025-12 |