| WXXI Public Broadcasting CouncilEIN 16-0838086 | Arts, Culture, Humanities | NY | $12,417,898Mid-sized | 91.98 |
| Wyman CenterEIN 43-0653263 | Human Services | MO | $7,965,727Mid-sized | 93.91 |
| Wyoming Outdoor CouncilEIN 83-0259411 | Environment | WY | $1,232,541Small | 90.39 |
| WYPREIN 31-1770828 | Arts, Culture, Humanities | MD | $5,053,059Mid-sized | 85.59 |
| Xerces Society for Invertebrate ConservationEIN 51-0175253 | Animals | OR | $3,906,555Mid-sized | 93.04 |
| XPRIZE FoundationEIN 52-1876879 | Research and Public Policy | CA | $36,428,638Large | 78.44 |
| Yad EzraEIN 38-2904733 | Human Services | MI | $2,419,474Small | 88.07 |
| Yad L'Achim Peyle IsraelEIN 23-7126417 | Religion | NY | $1,387,396Small | 59.84 |
| YaddoEIN 14-1343055 | Arts, Culture, Humanities | NY | $3,283,832Small | 79.36 |
| Yale-China AssociationEIN 06-0646971 | International | CT | $1,890,229Small | 92.22 |
| Yamhill Community Action PartnershipEIN 93-0758732 | Human Services | OR | $6,642,102Mid-sized | 95.47 |
| Yavapai Big Brothers Big SistersEIN 86-0278776 | Human Services | AZ | $1,346,504Small | 92.10 |
| Yavapai Humane SocietyEIN 86-0327745 | Animals | AZ | $2,700,017Small | 88.87 |
| Year UpEIN 04-3534407 | Education | MA | $126,205,361Large | 90.18 |
| Yellow Ribbon FundEIN 36-4567583 | Human Services | MD | $2,297,886Small | 82.93 |
| Yellowstone AcademyEIN 76-0686870 | Education | TX | $5,500,674Mid-sized | 81.97 |
| Yellowstone Art Museum EIN 81-6014902 | Arts, Culture, Humanities | MT | $1,726,530Small | 83.96 |
| Yellowstone ForeverEIN 47-5427975 | Environment | WY | $17,497,778Large | 90.63 |
| Yellowstone to Yukon Conservation InitiativeEIN 81-0535303 | Environment | MT | $1,719,870Small | 92.74 |
| Yerba Buena Center for the ArtsEIN 94-3042571 | Arts, Culture, Humanities | CA | $15,060,479Large | 92.91 |
| YIVO Institute for Jewish ResearchEIN 13-1641082 | Arts, Culture, Humanities | NY | $4,795,588Mid-sized | 94.12 |
| YMCA and JCC of Greater ToledoEIN 34-4428262 | Human Services | OH | $30,240,839Large | 84.15 |
| YMCA of Calhoun CountyEIN 63-0332253 | Human Services | AL | $1,507,521Small | 28.02 |
| YMCA of Capital DistrictEIN 14-1726531 | Human Services | NY | $37,431,981Large | 86.19 |
| YMCA of Central KentuckyEIN 61-0444842 | Human Services | KY | $14,108,069Large | 88.88 |
| YMCA of Central MassachusettsEIN 04-2105885 | Human Services | MA | $18,125,089Large | 89.70 |
| YMCA of Dane CountyEIN 39-0806253 | Human Services | WI | $11,526,375Mid-sized | 82.03 |
| YMCA of DeKalb CountyEIN 35-0868958 | Human Services | IN | $2,728,999Small | 92.02 |
| YMCA of Greater BostonEIN 04-2103551 | Human Services | MA | $73,546,098Large | 85.34 |
| YMCA of Greater CharlotteEIN 56-1045299 | Human Services | NC | $87,362,021Large | 91.65 |
| YMCA of Greater Des MoinesEIN 42-0680438 | Human Services | IA | $24,791,877Large | 90.55 |
| YMCA of Greater Grand RapidsEIN 38-1358058 | Human Services | MI | $32,974,563Large | 93.51 |
| YMCA of Greater HoustonEIN 74-1109737 | Human Services | TX | $131,905,393Large | 90.26 |
| YMCA of Greater IndianapolisEIN 35-0868211 | Human Services | IN | $58,412,976Large | 94.34 |
| YMCA of Greater Kansas CityEIN 44-0546002 | Human Services | MO | $48,107,319Large | 87.69 |
| YMCA of Greater NashuaEIN 02-0222250 | Human Services | NH | $11,407,676Mid-sized | 93.32 |
| YMCA of Greater New YorkEIN 13-1624228 | Human Services | NY | $190,793,573Large | 93.31 |
| YMCA of Greater OmahaEIN 47-0376586 | Human Services | NE | $20,216,069Large | 93.91 |
| YMCA of Greater PittsburghEIN 25-0969497 | Human Services | PA | $38,361,058Large | 89.27 |
| YMCA of Greater RochesterEIN 16-0743242 | Human Services | NY | $47,133,041Large | 91.42 |
| YMCA of Greater SeattleEIN 91-0482710 | Human Services | WA | $92,328,628Large | 96.15 |
| YMCA of Greater St. PetersburgEIN 59-0624468 | Human Services | FL | $13,559,665Large | 92.28 |
| YMCA of Greater Williamson CountyEIN 74-2206558 | Human Services | TX | $22,253,673Large | 88.74 |
| YMCA of GreenvilleEIN 57-0314424 | Human Services | SC | $22,324,916Large | 84.15 |
| YMCA of HonoluluEIN 99-0073533 | Human Services | HI | $28,641,629Large | 91.90 |
| YMCA of Long IslandEIN 11-1649914 | Human Services | NY | $35,401,188Large | 89.81 |
| YMCA of Martha's VineyardEIN 04-3293959 | Human Services | MA | $3,769,625Mid-sized | 82.68 |
| YMCA of Metropolitan AtlantaEIN 58-0566253 | Human Services | GA | $106,169,583Large | 93.61 |
| YMCA of Metropolitan ChicagoEIN 36-2179782 | Human Services | IL | $98,359,657Large | 88.33 |
| YMCA of Metropolitan DallasEIN 75-0800696 | Human Services | TX | $58,010,719Large | 93.93 |
| YMCA of Metropolitan DetroitEIN 38-1358055 | Human Services | MI | $37,134,782Large | 85.01 |
| YMCA of Metropolitan Fort WorthEIN 75-0827471 | Human Services | TX | $25,011,179Large | 89.52 |
| YMCA of Metropolitan Los AngelesEIN 95-1644052 | Human Services | CA | $92,647,202Large | 93.13 |
| YMCA of Middle TennesseeEIN 62-0476243 | Human Services | TN | $81,859,823Large | 86.33 |
| YMCA of Northwest FloridaEIN 59-0624465 | Human Services | FL | $2,908,841Small | 89.58 |
| YMCA of Orange CountyEIN 95-1644055 | Human Services | CA | $41,178,500Large | 92.23 |
| YMCA of San Diego CountyEIN 95-2039198 | Human Services | CA | $179,969,000Large | 93.64 |
| YMCA of San FranciscoEIN 94-0997140 | Human Services | CA | $86,038,853Large | 89.12 |
| YMCA of Sioux FallsEIN 46-0225021 | Human Services | SD | $3,745,240Mid-sized | 72.76 |
| YMCA of South Palm Beach CountyEIN 59-1416281 | Human Services | FL | $11,575,137Mid-sized | 91.27 |