| The Potter's HouseEIN 38-2372676 | Education | MI | $5,795,901Mid-sized | 75.37 |
| The Poverello CenterEIN 65-0056218 | Health | FL | $3,814,148Mid-sized | 76.92 |
| The PRASAD ProjectEIN 14-1751086 | International | NY | $642,361Small | 100.00 |
| The Prem Rawat FoundationEIN 91-2166236 | International | CA | $1,449,937Small | 99.54 |
| The Presidential Prayer TeamEIN 86-1040691 | Religion | AZ | $821,518Small | 90.79 |
| The Prince of Wales FoundationEIN 36-3820023 | Human Services | DC | $8,695,151Mid-sized | 76.07 |
| The Progeria Research FoundationEIN 04-3460220 | Health | MA | $2,362,863Small | 92.09 |
| The Public Education FoundationEIN 88-0275767 | Education | NV | $8,656,751Mid-sized | 88.53 |
| The Public Theater/New York Shakespeare FestivalEIN 13-1844852 | Arts, Culture, Humanities | NY | $43,034,852Large | 89.24 |
| The Purple DoorEIN 74-1943398 | Human Services | TX | $2,440,138Small | 98.53 |
| The Ragdale FoundationEIN 36-2937927 | Arts, Culture, Humanities | IL | $1,090,755Small | 82.16 |
| The Rainbow ConnectionEIN 38-2608775 | Health | MI | $2,628,517Small | 96.66 |
| The Rams ClubEIN 56-6058412 | Education | NC | $50,463,082Large | 88.22 |
| The Raymond F. Kravis Center for the Performing ArtsEIN 59-2245054 | Arts, Culture, Humanities | FL | $31,969,350Large | 92.29 |
| The Redwood Empire Food BankEIN 68-0121855 | Human Services | CA | $31,667,737Large | 96.94 |
| The RenaissanceEIN 34-1300583 | Arts, Culture, Humanities | OH | $1,924,168Small | 74.40 |
| The Renaissance Society at the University of ChicagoEIN 36-6109822 | Arts, Culture, Humanities | IL | $1,458,153Small | 86.70 |
| The Repertory Theatre of St. LouisEIN 43-0970273 | Arts, Culture, Humanities | MO | $8,760,634Mid-sized | 86.24 |
| The Rescue Mission of Salt LakeEIN 23-7177264 | Human Services | UT | $2,735,932Small | 93.37 |
| The Rescue Mission of the Mahoning ValleyEIN 34-6006424 | Human Services | OH | $2,304,858Small | 78.96 |
| The Rescue Mission, Fort WayneEIN 35-1054670 | Human Services | IN | $5,962,184Mid-sized | 90.50 |
| The Rescue Mission, TacomaEIN 91-0565014 | Human Services | WA | $6,340,392Mid-sized | 89.88 |
| The Resource FoundationEIN 13-3421446 | International | NY | $8,916,766Mid-sized | 93.53 |
| The Richard Nixon FoundationEIN 52-1278303 | Arts, Culture, Humanities | CA | $13,772,526Large | 91.36 |
| The River Food PantryEIN 20-4179749 | Human Services | WI | $5,624,854Mid-sized | 98.23 |
| The Road HomeEIN 87-0212465 | Human Services | UT | $15,310,245Large | 95.30 |
| The Roar FoundationEIN 95-3868718 | Animals | CA | $1,038,020Small | 78.89 |
| The Rodale InstituteEIN 23-7206884 | Research and Public Policy | PA | $4,280,099Mid-sized | 95.85 |
| The RoseEIN 76-0193812 | Health | TX | $11,946,600Mid-sized | 90.38 |
| The Rotary Foundation of Rotary InternationalEIN 36-3245072 | International | IL | $283,724,333Large | 97.51 |
| The Royal Oak FoundationEIN 23-7349380 | Arts, Culture, Humanities | NY | $1,974,042Small | 84.85 |
| The Rusty Staub FoundationEIN 13-3340651 | Education | NY | $1,795,622Small | 46.79 |
| The Rutherford InstituteEIN 52-1267484 | Human and Civil Rights | VA | $1,122,069Small | 81.64 |
| The SAFE AllianceEIN 74-2320657 | Human Services | TX | $19,434,147Large | 96.37 |
| The Safe America FoundationEIN 58-2141636 | Research and Public Policy | GA | $723,271Small | 72.13 |
| The Safina CenterEIN 61-1406022 | Environment | NY | $464,215Small | 77.85 |
| The Saint Paul FoundationEIN 41-6031510 | Community Development | MN | $76,717,221Large | 93.71 |
| The Samaritan InnEIN 75-1984285 | Human Services | TX | $3,612,716Mid-sized | 92.55 |
| The San Diego FoundationEIN 95-2942582 | Community Development | CA | $62,750,165Large | 86.93 |
| The San Diego LGBT Community CenterEIN 23-7332048 | Human and Civil Rights | CA | $5,914,366Mid-sized | 89.51 |
| The San Francisco FoundationEIN 01-0679337 | Community Development | CA | $167,683,582Large | 97.17 |
| The San Francisco-Marin Food BankEIN 94-3041517 | Human Services | CA | $95,814,790Large | 91.06 |
| The Santa Fe OperaEIN 85-0131810 | Arts, Culture, Humanities | NM | $26,057,135Large | 86.72 |
| The Sarasota BalletEIN 65-0135900 | Arts, Culture, Humanities | FL | $7,038,025Mid-sized | 92.02 |
| The School of American BalletEIN 13-1275970 | Arts, Culture, Humanities | NY | $15,413,167Large | 89.14 |
| The Schubert ClubEIN 41-0945277 | Arts, Culture, Humanities | MN | $2,098,558Small | 88.61 |
| The Scripps Research InstituteEIN 33-0435954 | Health | CA | $366,352,436Large | 90.57 |
| The Seattle Public Library FoundationEIN 91-1140642 | Arts, Culture, Humanities | WA | $5,750,770Mid-sized | 96.11 |
| The Second StepEIN 22-2868513 | Human Services | MA | $1,830,231Small | 81.36 |
| The SEED FoundationEIN 54-1850819 | Education | DC | $5,472,657Mid-sized | 89.48 |
| The Seeing EyeEIN 22-1539721 | Animals | NJ | $27,150,791Large | 85.82 |
| The Senior SourceEIN 75-1085555 | Human Services | TX | $6,613,663Mid-sized | 94.72 |
| The Sentencing ProjectEIN 52-1472546 | Human and Civil Rights | DC | $1,485,974Small | 92.20 |
| The SentryEIN 20-8827879 | International | DC | $2,861,789Small | 89.39 |
| The Shade TreeEIN 88-0253276 | Human Services | NV | $3,411,140Small | 89.89 |
| The Shakespeare Theatre of New JerseyEIN 22-1962163 | Arts, Culture, Humanities | NJ | $4,083,714Mid-sized | 87.14 |
| The Shalom Hartman Institute of North AmericaEIN 13-3014387 | Education | NY | $16,313,890Large | 91.51 |
| The Sharing CenterEIN 59-2744535 | Human Services | FL | $3,997,342Mid-sized | 88.85 |
| The Shawn Carter FoundationEIN 11-3662240 | Education | FL | $832,035Small | 78.20 |
| The Shea Center for Therapeutic RidingEIN 95-3351363 | Health | CA | $3,757,858Mid-sized | 89.18 |