| Emily K CenterEIN 56-2230469 | Human Services | NC | $2,219,274Small | 91.11 |
| Emmaus H.O.M.E.EIN 01-0287624 | Community Development | ME | $1,561,527Small | 72.60 |
| EMpowerEIN 03-0529005 | International | NY | $4,505,664Mid-sized | 91.55 |
| Empowering Lives InternationalEIN 33-0610787 | International | CA | $1,459,122Small | 79.89 |
| Emunah of AmericaEIN 13-2670365 | Human Services | NY | $5,123,297Mid-sized | 82.55 |
| EnactusEIN 74-2148471 | Education | MO | $14,501,666Large | 82.89 |
| EncompassEIN 91-0825232 | Human Services | WA | $3,883,177Mid-sized | 89.50 |
| Encore.orgEIN 94-3274339 | Research and Public Policy | CA | $6,224,565Mid-sized | 90.71 |
| enCourage Kids FoundationEIN 13-3442216 | Health | NY | $3,110,680Small | 89.25 |
| EndeavorEIN 13-3931449 | International | NY | $9,653,170Mid-sized | 89.63 |
| Endometriosis AssociationEIN 39-1414754 | Health | WI | $337,741Small | 73.20 |
| endPoverty.orgEIN 54-1371549 | International | VA | $501,476Small | 76.19 |
| Energy Outreach ColoradoEIN 74-2543881 | Human Services | CO | $25,022,578Large | 90.82 |
| EngenderHealthEIN 13-1623838 | International | DC | $61,909,568Large | 88.50 |
| Engineering Ministries InternationalEIN 74-2213629 | International | CO | $5,325,116Mid-sized | 94.27 |
| English Language Institute/ChinaEIN 95-3551085 | International | CO | $18,429,283Large | 80.10 |
| Enlace ChicagoEIN 36-3727669 | Community Development | IL | $3,830,895Mid-sized | 88.22 |
| ENLACE USAEIN 04-3675191 | International | CA | $1,701,249Small | 81.89 |
| Ensemble Theater CompanyEIN 95-3408200 | Arts, Culture, Humanities | CA | $2,506,179Small | 90.58 |
| Enterprise Community PartnersEIN 52-1231931 | Community Development | MD | $67,947,685Large | 94.66 |
| Entertainment Industry FoundationEIN 95-1644609 | Health | CA | $61,723,094Large | 97.17 |
| EntrustEIN 54-1256309 | Religion | CO | $3,792,951Mid-sized | 93.47 |
| Environment America Research and Policy CenterEIN 13-4339865 | Environment | CO | $3,179,487Small | 83.13 |
| Environmental Advocates of New YorkEIN 22-2360736 | Environment | NY | $1,251,586Small | 99.79 |
| Environmental and Energy Study InstituteEIN 52-1268030 | Environment | DC | $1,296,571Small | 100.00 |
| Environmental Defense CenterEIN 77-0061994 | Environment | CA | $1,135,564Small | 90.57 |
| Environmental Grantmakers AssociationEIN 20-8817646 | Environment | NY | $2,539,563Small | 91.44 |
| Environmental Health CoalitionEIN 95-3798792 | Environment | CA | $3,829,007Mid-sized | 86.60 |
| Environmental InitiativeEIN 41-1718834 | Environment | MN | $2,064,185Small | 96.07 |
| Environmental Integrity ProjectEIN 20-1326922 | Environment | DC | $3,168,637Small | 84.42 |
| Environmental Investigation AgencyEIN 52-1654284 | Environment | DC | $4,791,938Mid-sized | 89.39 |
| Environmental Law Alliance WorldwideEIN 94-3116602 | Environment | OR | $1,816,495Small | 95.34 |
| Environmental Law and Policy CenterEIN 36-3866530 | Environment | IL | $6,344,275Mid-sized | 93.30 |
| Environmental Law InstituteEIN 52-0901863 | Environment | DC | $5,604,514Mid-sized | 92.44 |
| Environmental Research and Education FoundationEIN 52-1804051 | Environment | NC | $2,511,072Small | 95.50 |
| Environmental Traveling CompanionsEIN 51-0158789 | Human Services | CA | $1,111,244Small | 78.76 |
| Environmental Working GroupEIN 52-2148600 | Environment | DC | $9,318,340Mid-sized | 91.51 |
| EOD Warrior FoundationEIN 20-8618412 | Human Services | FL | $1,378,932Small | 92.02 |
| Epic AcademyEIN 20-8674711 | Education | IL | $5,660,374Mid-sized | 80.90 |
| Epilepsy Foundation of MinnesotaEIN 41-0874541 | Health | MN | $2,228,406Small | 87.22 |
| Epilepsy Foundation of TexasEIN 74-2141084 | Health | TX | $2,624,467Small | 89.60 |
| Epiphany SchoolEIN 04-3391788 | Education | MA | $4,014,326Mid-sized | 83.21 |
| Episcopal Charities of the Diocese of New YorkEIN 13-3902908 | Human Services | NY | $1,785,346Small | 86.42 |
| Episcopal Church FoundationEIN 13-1776448 | Religion | NY | $4,278,329Mid-sized | 86.61 |
| Episcopal Relief & DevelopmentEIN 73-1635264 | International | NY | $21,968,901Large | 91.01 |
| Epworth Children's HomeEIN 57-0314389 | Human Services | SC | $6,948,186Mid-sized | 94.72 |
| Equal Justice AmericaEIN 13-3708596 | Human and Civil Rights | VA | $1,109,390Small | 73.99 |
| Equal Justice InitiativeEIN 63-1135091 | Human and Civil Rights | AL | $5,690,202Mid-sized | 100.00 |
| Equal Justice WorksEIN 52-1469738 | Human and Civil Rights | DC | $17,605,902Large | 90.17 |
| Equal Rights AdvocatesEIN 23-7217027 | Human and Civil Rights | CA | $1,623,252Small | 80.47 |
| Equality California InstituteEIN 68-0438008 | Human and Civil Rights | CA | $1,960,521Small | 90.71 |
| Equality Florida InstituteEIN 59-3435235 | Human and Civil Rights | FL | $2,652,749Small | 92.03 |
| Equality NowEIN 13-3660566 | International | NY | $4,916,223Mid-sized | 94.13 |
| EquestEIN 75-1823701 | Human Services | TX | $1,784,585Small | 85.71 |
| Equine AdvocatesEIN 11-3313534 | Animals | NY | $1,445,721Small | 87.52 |
| EQUIPEIN 33-0686464 | Religion | GA | $4,149,515Mid-sized | 80.95 |
| Eric Carle Museum of Picture Book ArtEIN 04-3542086 | Arts, Culture, Humanities | MA | $3,180,878Small | 84.43 |
| Erie City MissionEIN 25-0987217 | Human Services | PA | $3,760,099Mid-sized | 86.08 |
| Erie Community FoundationEIN 25-6032032 | Community Development | PA | $20,998,824Large | 96.64 |
| ESCAPE Family Resource CenterEIN 76-0029184 | Human Services | TX | $1,330,222Small | 75.99 |