| Laxmi Narayan Dev Spiritual Organization | 501(c)(3) | 2009 | $2.2 million | $7.2 million | 2025-12 |
| Light of Morning Star Foundation | 501(c)(3) | 2014 | $1.6 million | $22.8 million | 2024-12 |
| Northern California Christian Conference Center Inc | 501(c)(3) | 2019 | $1.5 million | $19.2 million | 2025-12 |
| Third Pillar Islamic Charity | 501(c)(3) | 2024 | $1.2 million | $350,605 | 2025-12 |
| Buddhanusorn Inc | 501(c)(3) | 1984 | $832,973 | $7.7 million | 2025-12 |
| Showers of Blessing Evangelistic Ministry USA | 501(c)(3) | 2002 | $644,205 | $1.7 million | 2024-12 |
| Shaolin Temple USA | 501(c)(3) | 2008 | $640,633 | $2 million | 2024-12 |
| Hope Media International Inc | 501(c)(3) | 2004 | $481,850 | $308,196 | 2025-12 |
| Sanatana Hindu-Dharma International Vedic Awareness | 501(c)(3) | 2025 | $472,758 | $3 million | 2026-02 |
| Guruji Sangat Northern California | 501(c)(3) | 2021 | $345,409 | $630,899 | 2024-12 |
| Luke Christian Medical Mission Inc | 501(c)(3) | 1995 | $316,736 | $761,349 | 2025-12 |
| Missionaries of Faith - India Inc | 501(c)(3) | 2009 | $296,085 | $1.7 million | 2024-12 |
| Dominican Sisters of Mission San Jose Foundation | 501(c)(3) | 1946 | $256,995 | $4 million | 2025-07 |
| Fremont Charitable Missions Foundation | 501(c)(3) | 2002 | $243,923 | $4.5 million | 2025-12 |
| Kusalakari Corp | 501(c)(3) | 2000 | $203,973 | $803,042 | 2025-12 |
| Peninsula Islamic Association Inc | 501(c)(3) | 2015 | $185,276 | $49,840 | 2024-12 |
| Muslim Funeral Service of USA | 501(c)(13) | 2025 | $176,679 | $88,090 | 2025-12 |
| John Duns Scotus Bible Reading Promotion Center Inc | 501(c)(3) | 2016 | $168,371 | $482,990 | 2025-12 |
| Youth Empowering Nation | 501(c)(3) | 2017 | $96,602 | $314,526 | 2025-12 |
| Roots & Branches International Ministries | 501(c)(3) | 2016 | $78,812 | $5,163 | 2025-12 |
| Agape Asian Mission | 501(c)(3) | 2000 | $66,844 | $68,146 | 2025-12 |
| 360 Sonrise | 501(c)(3) | 2022 | $60,114 | $154,432 | 2024-12 |
| Jmission | 501(c)(3) | 2019 | $45,000 | $1.6 million | 2025-12 |
| Could It Be the Food Inc | 501(c)(3) | 2022 | $41,950 | $6,576 | 2025-12 |
| Maitreya Buddhist Institute | 501(c)(3) | 2006 | $27,552 | $393,771 | 2025-12 |
| American Taoist Institute | 501(c)(3) | 2019 | $4,715 | $165,030 | 2024-12 |
| 20TH Street Commission Inc | 501(c)(3) | 2024 | | | |
| 418 International Family Center | 501(c)(3) | 2024 | | | |
| Agapefocus | 501(c)(3) | 2022 | $0 | $0 | 2025-12 |
| American Sikh Caucus Committee | 501(c)(4) | 2018 | $0 | $0 | 2024-12 |
| Amitabha Lotus | 501(c)(3) | 2023 | $0 | $0 | 2025-12 |
| Anekant Foundation Inc | 501(c)(3) | 2026 | | | |
| Apostolic Church Lawna USA Antioch Assembly Inc | 501(c)(3) | 2021 | | | |
| Bay Area Thiruppugazh Anbargal | 501(c)(3) | 2026 | | | |
| Beblesst Art Mission Association | 501(c)(3) | 2019 | $0 | $0 | 2025-12 |
| Beloveds Church of the Bay Area | 501(c)(3) | 2007 | | | |
| Bethel Pentecostal Assembly | 501(c)(3) | 2015 | | | |
| Beyond Institute for Faith and Science Discovery | 501(c)(3) | 2025 | | | |
| Bhakti Kendra Inc | 501(c)(3) | 2021 | $0 | $0 | 2021-12 |
| Ca Jesus Grace Mission Inc | 501(c)(3) | 2020 | $0 | $0 | 2025-12 |
| California Buddhist Vihara Inc | 501(c)(3) | 2008 | | | |
| Chabad of Fremont Jewish Community Center | 501(c)(3) | 2014 | | | |
| Charismatic Ecumenical Ministries International Silicon Valley | 501(c)(3) | 2003 | | | |
| Chinese Independent Baptist Church of Freemont | 501(c)(3) | 2004 | | | 2004-12 |
| Christ Gospel Church of Redwood City | 501(c)(3) | 2020 | | | |
| Christian Outreach Planning Associates Incorporated | 501(c)(3) | 2015 | | | |
| Cityserve | 501(c)(3) | 2007 | | | |
| Collide City Church | 501(c)(3) | 2021 | | | |
| Crossroads Church of Fremont | 501(c)(3) | 1998 | | | |
| DSL Shekinah Mission | 501(c)(3) | 2022 | $0 | $0 | 2025-12 |
| Dharma Drum Mountain Buddhist Association-San Francisco | 501(c)(3) | 2004 | | | |
| Divine Retreat California | 501(c)(3) | 2025 | $0 | $0 | 2025-12 |
| Ebrahim Pakrooh Ministry | 501(c)(3) | 2023 | $0 | $0 | 2025-12 |
| Egrace for Christ | 501(c)(3) | 2013 | | | |
| Elim Chinese Baptist Church | 501(c)(3) | 2009 | | | |
| Emmanuels Blessings | 501(c)(3) | 2025 | | | |
| Escuela Internacional de Capellanes Vasos de Misericordia Org | 501(c)(3) | 2017 | $0 | $0 | 2024-12 |
| Faith Community Church of the Bay Area | 501(c)(3) | 2019 | | | |
| Family Bible Fellowship | 501(c)(3) | 1996 | | | |
| Filipino Catholic Organization - Simbang Gabi Corporation | 501(c)(3) | 2025 | $0 | $0 | 2025-12 |
| Fire of God Ministries Inc | 501(c)(3) | 2012 | | | |
| Forerunners Church Inc | 501(c)(3) | 2007 | | | |
| Fremont California Assembly Hall of Jehovahs Witnesses Inc | 501(c)(3) | 2005 | | | |
| Fremont Grace Church | 501(c)(3) | 2013 | | | |
| Fuente de Vida Inc | 501(c)(3) | 2016 | | | |
| GRPK Sewa Society | 501(c)(3) | 2025 | $0 | $1 | 2025-12 |
| Global Village Christian Center | 501(c)(3) | 2003 | | | |
| Grace Baptist Church | 501(c)(3) | 2002 | | | |
| Grace Christian Koinonia | 501(c)(3) | 1996 | | | |
| Grace Church Fremont Ministries | 501(c)(3) | 2019 | | | |
| Graceful Christian Community Church | 501(c)(3) | 2006 | | | |
| Han Ma Eum Church | 501(c)(3) | 2008 | | | |
| Hikmah Institute | 501(c)(3) | 2015 | $0 | $0 | 2025-12 |
| Holy Covenant of the Dragon | 501(c)(3) | 2020 | | | |
| House of Hope Healing Center | 501(c)(3) | 2026 | | | |
| Iapt Us Meditation Center | 501(c)(3) | 2026 | | | |
| Ibrahim Khalilullah Islamic Center | 501(c)(3) | 2012 | | | |
| Iglesia Buenas Nuevas Bay Area | 501(c)(3) | 2025 | | | |
| Iglesia de Jubilo de La Fe En Cristo Jesus Inc | 501(c)(3) | 2013 | | | |
| Immanuel Global Mission | 501(c)(3) | 2007 | $0 | $0 | 2024-12 |
| International Gita Society | 501(c)(3) | 2014 | $0 | $0 | 2025-12 |
| Iskcon Gandhidham | 501(c)(3) | 2019 | $0 | $0 | 2025-12 |
| Islamic Center of Fremont | 501(c)(3) | 2002 | | | |
| Jaya Bharat | 501(c)(3) | 2018 | | | |
| Journey of Songs | 501(c)(3) | 2016 | $0 | $0 | 2025-12 |
| Karya Siddhi Hanuman Temple | 501(c)(3) | 2025 | | | |
| King of Kings Outreach Ministry | 501(c)(3) | 2026 | | | |
| Lighthouse Bible Fellowship | 501(c)(3) | 1996 | | | |
| Living Hope Church of the East Bay | 501(c)(3) | 2025 | | | |
| Living Water Asian Outreach Ministries | 501(c)(3) | 1999 | $0 | $0 | 2025-12 |
| Logos Korean Evangelical Church of America | 501(c)(3) | 2014 | | | |
| Mandayams | 501(c)(3) | 2009 | $0 | $0 | 2024-12 |
| Miracle Ministries International | 501(c)(3) | 2024 | $0 | $0 | 2025-12 |
| Mission San Jose Community | 501(c)(3) | 1997 | | | |
| Mission for Chinese Families | 501(c)(3) | 2022 | $0 | $0 | 2025-12 |
| Modi Temple of Spirituality | 501(c)(3) | 2024 | | | |
| Muslim Support Network | 501(c)(3) | 2014 | $0 | $0 | 2025-12 |
| Myanmar Christian Church of Fremont | 501(c)(3) | 2018 | $0 | $0 | 2025-12 |
| New Life Gospel Chinese Christian Church | 501(c)(3) | 2014 | | | |
| Niles Muslim Community | 501(c)(3) | 2024 | $0 | $0 | 2025-12 |
| Nithyananda Dhyanapeetam of San Jose | 501(c)(3) | 2008 | | | |
| Northern California Deaf Church | 501(c)(3) | 2009 | | | |
| Northern California Korean Methodist Church | 501(c)(3) | 1996 | | | |
| Obreros de Adoracion Pentecostal de Fremont Ca | 501(c)(3) | 2025 | $0 | $0 | 2025-12 |
| Olor Fragante Comunidad Cristiana Inc | 501(c)(3) | 2018 | | | |
| On the Bansuk Mission 1618 Inc | 501(c)(3) | 2025 | $0 | $0 | 2026-01 |
| One Spirit Mission Foundation | 501(c)(3) | 1996 | | | |
| Our Fathers House | 501(c)(3) | 2006 | | | |
| Panaiyur Sri Kathavarayan Temple Fo Undation USA | 501(c)(3) | 2026 | | | |
| Pathway Bible Church of California Inc | 501(c)(3) | 2017 | | | |
| Pillar Baptist Church | 501(c)(3) | 2013 | | | |
| Plag Ministries | 501(c)(3) | 2026 | | | |
| Presbyterian Chruch of Faith | 501(c)(3) | 2001 | | | |
| Project Stepping-Stone Inc | 501(c)(3) | 2025 | $0 | $0 | 2024-12 |
| Purple Lotus Temple | 501(c)(3) | 1993 | | | |
| Redeemer Church of Silicon Valley | 501(c)(3) | 2020 | | | |
| Reformed Life University America | 501(c)(3) | 2019 | $0 | $0 | 2024-12 |
| Restore22 | 501(c)(3) | 2023 | | | |
| Rey de Justicia Internacional | 501(c)(3) | 2014 | | | |
| Romani Christian Center Inc | 501(c)(3) | 2012 | | | |
| Root of Jesse Ministry | 501(c)(3) | 2021 | $0 | $0 | 2025-12 |
| Ruya Foundation | 501(c)(3) | 2023 | $0 | $0 | 2024-12 |
| Satprakasha | 501(c)(3) | 2024 | $0 | $0 | 2025-06 |
| Sehwa Korean Church | 501(c)(3) | 2002 | | | |
| Shalom Preschool | 501(c)(3) | 2022 | | | 2023-07 |
| Shri Datta Chaitanya Dham of America Inc | 501(c)(3) | 2022 | $0 | $0 | 2025-12 |
| Shrimad Rajchandra Aatma Tatva Rese Arch Center | 501(c)(3) | 2026 | | | |
| Silicon Valley Sarbojonin Inc | 501(c)(3) | 2022 | $0 | $0 | 2025-12 |
| Sindhi Community Association of Northern California | 501(c)(3) | 2016 | $0 | $0 | 2025-12 |
| Sri Ramana Maharshi Heritage | 501(c)(3) | 2022 | | | |
| Stillwaters Christian Church | 501(c)(3) | 1995 | | | |
| Straight Paths Inc | 501(c)(3) | 2021 | $0 | $0 | 2025-12 |
| Sunshine in Winter Foundation | 501(c)(3) | 2004 | $0 | $0 | 2025-12 |
| Taqwa Islamic Center | 501(c)(3) | 2010 | | | |
| Telugu Church of Silicon Valley | 501(c)(3) | 2016 | | | |
| Temple Betania Assembly of God | 501(c)(3) | 2003 | | | |
| Temple of 1001 Buddhas | 501(c)(3) | 2020 | | | |
| Tergar Meditation L A | 501(c)(3) | 2011 | | $33,294 | 2025-12 |
| The Bay Area Tamil Catholic Fellowship | 501(c)(3) | 2006 | $0 | $0 | 2025-12 |
| The Church in Fremont | 501(c)(3) | 2001 | | | |
| The Home of Christ Church in Fremont | 501(c)(3) | 2002 | | | |
| The Triumphant Church Inc | 501(c)(3) | 1998 | | | |
| Tree of Life Lords Harvest Christian Church | 501(c)(3) | 1998 | | | |
| Ulne World Missionary Foundation Inc | 501(c)(3) | 2015 | $0 | $0 | 2025-12 |
| Union Star Missionary Baptist Church | 501(c)(3) | 1998 | | | |
| Vedic Sanskriti Sansathanam | 501(c)(3) | 2013 | | | |
| Victory Outreach Fremont | 501(c)(3) | 2011 | | | |
| Vineyard Christian Fellowship Fremont | 501(c)(3) | 2001 | | | |
| Voice of Triumph Church Inc | 501(c)(3) | 2014 | | | |
| We Hope Foundation | 501(c)(3) | 2026 | | | |
| Wings of Shalom | 501(c)(3) | 2025 | $0 | $0 | 2025-12 |
| Wkicu | 501(c)(3) | 2022 | $0 | $0 | 2025-12 |