| Boys Town Jerusalem Foundation of AmericaEIN 11-5324002 | Human Services | NY | $6,530,883Mid-sized | 85.69 |
| BRAC USAEIN 20-8456741 | International | NY | $8,445,127Mid-sized | 85.85 |
| Brain & Behavior Research FoundationEIN 31-1020010 | Health | NY | $17,729,428Large | 90.71 |
| BrazilFoundationEIN 13-4131482 | International | NY | $3,448,809Small | 91.42 |
| Breast Cancer Research FoundationEIN 13-3727250 | Health | NY | $76,886,163Large | 90.48 |
| Brennan Center for Justice at NYU School of LawEIN 13-3839293 | Human and Civil Rights | NY | $17,732,433Large | 91.92 |
| Bridges to CommunityEIN 13-3731405 | International | NY | $2,059,742Small | 80.01 |
| Broadway Cares/Equity Fights AIDSEIN 13-3458820 | Health | NY | $22,604,203Large | 81.84 |
| Brooklyn Academy of MusicEIN 11-2201344 | Arts, Culture, Humanities | NY | $51,562,831Large | 85.15 |
| Brooklyn Botanic GardenEIN 11-2417338 | Environment | NY | $22,441,961Large | 93.86 |
| Brooklyn Historical SocietyEIN 11-1630813 | Arts, Culture, Humanities | NY | $5,401,797Mid-sized | 85.87 |
| Brooklyn MuseumEIN 11-1672743 | Arts, Culture, Humanities | NY | $43,855,989Large | 87.89 |
| Brooklyn Teen ChallengeEIN 11-2510315 | Health | NY | $1,436,310Small | 78.31 |
| Brooklyn Youth Chorus AcademyEIN 11-3129249 | Education | NY | $2,640,431Small | 89.77 |
| Broome County Council of ChurchesEIN 15-0547374 | Human Services | NY | $4,822,734Mid-sized | 92.74 |
| Buffalo City MissionEIN 16-0743965 | Human Services | NY | $8,709,233Mid-sized | 78.72 |
| Buffalo Philharmonic OrchestraEIN 16-0755739 | Arts, Culture, Humanities | NY | $11,854,256Mid-sized | 75.15 |
| Building Homes for HeroesEIN 20-4540852 | Human Services | NY | $11,604,904Mid-sized | 96.46 |
| Byrd Hoffman Water Mill FoundationEIN 13-4144013 | Arts, Culture, Humanities | NY | $4,627,048Mid-sized | 89.85 |
| C-FAMEIN 13-3964076 | International | NY | $1,755,829Small | 70.05 |
| Cambridge in AmericaEIN 52-6071299 | Education | NY | $86,183,618Large | 92.02 |
| Camp Good Days and Special TimesEIN 22-2329654 | Health | NY | $5,165,207Mid-sized | 92.22 |
| Cancer Research InstituteEIN 13-1837442 | Health | NY | $24,672,872Large | 92.18 |
| Capital District Youth for ChristEIN 14-1433750 | Religion | NY | $1,483,762Small | 75.26 |
| CaramoorEIN 13-5643627 | Arts, Culture, Humanities | NY | $7,027,427Mid-sized | 86.67 |
| Careers through Culinary Arts Program (C-CAP)EIN 13-3662917 | Human Services | NY | $6,225,489Mid-sized | 85.90 |
| Carnegie Council for Ethics in International AffairsEIN 13-1573954 | International | NY | $3,528,670Mid-sized | 81.55 |
| Cary Institute of Ecosystem StudiesEIN 22-3232968 | Research and Public Policy | NY | $13,031,409Mid-sized | 94.32 |
| Casita MariaEIN 13-1623994 | Human Services | NY | $3,239,288Small | 88.21 |
| Catholic Big Sisters & Big BrothersEIN 13-5564115 | Human Services | NY | $1,235,856Small | 87.63 |
| Catholic Charities of BuffaloEIN 16-0743251 | Human Services | NY | $34,668,837Large | 91.01 |
| Catholic League for Religious and Civil RightsEIN 23-7279981 | Human and Civil Rights | NY | $3,045,051Small | 77.40 |
| Catholic Medical Mission BoardEIN 13-5602319 | International | NY | $581,681,284Large | 97.87 |
| Catholic Near East Welfare Association (CNEWA)EIN 13-1623929 | Religion | NY | $25,303,965Large | 95.54 |
| Catskill Animal SanctuaryEIN 14-1827972 | Animals | NY | $2,104,076Small | 96.35 |
| CEC ArtsLinkEIN 13-2531695 | International | NY | $724,948Small | 82.05 |
| Center for Arts EducationEIN 13-3938080 | Education | NY | $2,749,501Small | 81.74 |
| Center for Constitutional RightsEIN 22-6082880 | Human and Civil Rights | NY | $10,523,997Mid-sized | 95.14 |
| Center for Hearing and CommunicationEIN 13-1624127 | Human Services | NY | $5,685,758Mid-sized | 86.20 |
| Center for Initiatives in Jewish EducationEIN 77-0698155 | Education | NY | $4,342,419Mid-sized | 74.16 |
| Center for Jewish HistoryEIN 13-3863344 | Arts, Culture, Humanities | NY | $8,554,129Mid-sized | 86.15 |
| Center for Reproductive RightsEIN 13-3669731 | Human and Civil Rights | NY | $24,884,918Large | 93.94 |
| Center for Safety and ChangeEIN 13-2989233 | Human Services | NY | $3,513,740Mid-sized | 90.09 |
| Center for Talent InnovationEIN 13-3730312 | Research and Public Policy | NY | $4,340,285Mid-sized | 88.16 |
| Central New York Community FoundationEIN 15-0626910 | Community Development | NY | $22,768,461Large | 97.89 |
| Central Park ConservancyEIN 13-3022855 | Environment | NY | $72,425,618Large | 94.20 |
| Cerebral Palsy FoundationEIN 13-6093337 | Health | NY | $1,808,965Small | 82.51 |
| CFES Brilliant PathwaysEIN 22-3159630 | Education | NY | $3,564,584Mid-sized | 84.83 |
| Chabad's Children of ChernobylEIN 13-3722594 | International | NY | $172,434Small | 58.25 |
| Chai LifelineEIN 11-2940331 | Human Services | NY | $19,233,028Large | 86.18 |
| Chamber Music AmericaEIN 13-2934575 | Arts, Culture, Humanities | NY | $2,826,648Small | 91.12 |
| Chamber Music Society of Lincoln CenterEIN 13-2628036 | Arts, Culture, Humanities | NY | $8,916,142Mid-sized | 91.66 |
| charity: waterEIN 22-3936753 | International | NY | $35,902,241Large | 91.16 |
| Chess in the SchoolsEIN 13-6119036 | Education | NY | $2,849,813Small | 84.95 |
| Child Mind InstituteEIN 80-0478843 | Health | NY | $14,159,225Large | 91.25 |
| Children of Armenia FundEIN 11-3579187 | International | NY | $4,802,238Mid-sized | 92.35 |
| Children of Bellevue, Inc.EIN 13-1679615 | Health | NY | $1,304,234Small | 81.18 |
| Children's AidEIN 13-5562191 | Human Services | NY | $130,688,819Large | 86.93 |
| Children's Bible Fellowship of New YorkEIN 11-1834468 | Religion | NY | $442,553Small | 58.31 |
| Children's Brain Tumor FoundationEIN 13-3512123 | Health | NY | $1,373,907Small | 74.42 |