Gereja Reformed
Gereja Reformed di Indonesia

Sebagian besar gereja Protestan di Indonesia, terutama di pulau Jawa, mendapat pengaruh Gereja Reformed, terutama dari badan misi Gereja Reformed Belanda (Nederlandse Hervormde Kerk atau NHK) dan Gereja Gereformeered Belanda (Gereformeerde Kerken in Nederland). Selain itu gereja Reformed di Indonesia yang bercorak evangelistik (Injili) dikenal sebagai Gereja Reformed Injili Indonesia.
Gereja Batak Karo Protestan (Karo Batak Protestant Church)
Gereja Injili Indonesia (Indonesian Evangelical Church)  Diarsipkan 2023-05-30 di Wayback Machine.
Gereja Jemaat Protestan di Irian Jaya (Protestant Congregations Church in Irian Jaya)
Gereja Kalimantan Evangelis (Evangelical Church in Kalimantan)
Gereja Kemah Injil Indonesia (Indonesian Gospel Tabernacle Church)
Gereja Kristen di Luwuk Banggai (Christian Church in Luwuk Banggai)
Gereja Kristen di Sulawesi Selatan (Christian Church in South Sulawesi)
Gereja Kristen Indonesia (Indonesian Christian Church)  Diarsipkan 2018-08-31 di Wayback Machine.  Diarsipkan 2023-03-25 di Wayback Machine.
Gereja Kristen Indonesia Sulawesi Selatan (Indonesian Christian Church of Sulawesi)
Gereja Kristen Injili Di Tanah Papua (Evangelical Christian Church in West Papua)
Gereja Kristen Jawa (Javanese Christian Church)  Diarsipkan 2017-06-03 di Wayback Machine.  Diarsipkan 2023-03-25 di Wayback Machine.
Gereja Kristen Jawa Tengah Utara (Javanese Christian Church of Northern Central Java)
Gereja Kristen Jawi Wetan (The East Java Christian Church)
Gereja Kristen Kalam Kudus (Holy Word Christian Church)
Gereja Kristen Kalimantan Barat (West Kalimantan Christian Church) Diarsipkan 2023-06-04 di Wayback Machine.
Gereja Kristen Pasundan (Pasundan Christian Church)
Gereja Kristen Pemancar Injil (Gospel Propagating Christian Church)
Gereja Kristen Protestan di Bali (Protestant Christian Church in Bali)
Gereja Kristen Sulawesi Tengah (Christian Church in Central Sulawesi)
Gereja Kristen Sumatera Bagian Selatan (Christian Church of Southern Sumatra)
Gereja Kristen Sumba (Christian Church of Sumba)
Gereja Kristus (Church of Christ)
Gereja Kristus Tuhan (The Church of Christ the Lord)
Gereja Masehi Injili di Bolaang Mongondow (Christian Evangelical Church in Bolaang Mongondow)
Gereja Masehi Injili di Minahasa (Christian Evangelical Church in Minahasa)
Gereja Masehi Injili di Timor (Christian Evangelical Church in Timor)
Gereja Masehi Injili di Sangihe Talaud (Christian Evangelical Church in Sangihe-Talaud)
Gereja Masehi Injili Halmahera (The Christian Evangelical Church in Halmahera)
Gereja Protestan di Indonesia bagian Barat (Protestant Church in West Indonesia)
Gereja Protestan di Indonesia (Protestant Church in Indonesia)
Gereja Protestan di Sulawesi Tenggara (Protestant Church in Southeast Sulawesi)
Gereja Protestan Indonesia di Buol Toli-Toli (Indonesian Protestant Church in Buol Toli-Toli)
Gereja Protestan Indonesia di Gorontalo (Indonesian Protestant Church in Gorontalo)
Gereja Protestan Indonesia di Irian Jaya (Indonesian Protestant Church in Irian Jaya)
Gereja Protestan Indonesia Donggala (Indonesian Protestant Church in Donggala)
Gereja Protestan Indonesia Luwu (Luwu Indonesian Protestant Church)
Gereja Protestan Kalimantan Barat (Protestant Church of West Kalimantan)
Gereja Protestan Maluku (Protestant Church in the Moluccas)
Gereja Reformed Injili Indonesia (Indonesian Reformed Evangelical Church)  Diarsipkan 2023-05-29 di Wayback Machine.  Diarsipkan 2021-02-20 di Wayback Machine.
Gereja Toraja (Toraja Church)
Gereja Toraja Mamasa (Toraja Mamasa Church)
Gereja-Gereja Kristen Indonesia Sumatera Utara (Indonesian Christian Church of North Sumatra)
Gereja-Gereja Masehi Musyafir (The Pilgrim's Churches)
Gereja-Gereja Reformasi di Indonesia (Reformed Churches in Indonesia - Irian Jaya)
Gereja-Gereja Reformasi di Indonesia (Reformed Churches in Indonesia - Nusatenggara Timur)
Gereja Reformasi Indonesia (Indonesian Reformed Church)
Gereja Reformed Baptist Indonesia (Reformed Baptist Indonesia)
Gereja-Gereja Reformasi di Indonesia Kalimantan Barat (Reformed Churches in Indonesia - Kalimantan Barat)
Kerapatan Gereja Protestan Minahasa (The Congregational Minahasa Protestant Church)
Gereja Jemaat Reformasi Papua (GJRP) di Papua, mendirikan sebuah STT dengan nama Sekolah Tinggi Teologi Reformasi Wamena.
Gereja Kristus Tuhan berpusat di Jawa Timur, mendirikan sebuah STT dengan nama Sekolah Tinggi Teologi Aletheia, di Lawang-Malang