Member missions are missionary agencies that have become members of JEMA. All their missionaries automatically become JEMA members and the missions have voting rights at JEMA meetings.

Association of Baptists for World Evangelism (ABWE)
Agape Mission (AGAPE) 
American Baptist Foreign Mission Society (ABFMS)
Asian Access (A2)
Assemblies of God Missionary Fellowship (AGMF-USA) 
Christian Reformed Japan Mission (CRJM) 
Church Missionary Society – Australia (CMS)
Church of God Mission (CG)
Converge Japan (CJ)
Evangelical Covenant Church (ECC)
Evangelical East Asia Mission (EEAM) 
Evangelical Free Church of America ReachGlobal Japan (EFCA RGJ)
Evangelical Free Church of Canada Mission (EFCCM)
Finnish Lutheran Mission (FLM)
German Alliance Mission (GAM)
International Mission Board (IMB/SBC)
International Ministerial Fellowship (IMF)
Japan Campus Crusade for Christ (JCCC)
Japan Christian Link (JCL)
Japanese Evangelical Missionary Society (JEMS)
Japan Fellowship Deaconry Mission (JFDM)
Japan Free Will Baptist Mission (JFWBM)
Japan Lutheran Brethren  Mission (LBIM)
Japan Presbyterian Mission (Mission to the World) (JPM-PCA)
Liebenzell Mission International (LMI)
Lutheran Evangelical Association of Finland (LEAF)
Lutheran Free Church of Norway, Japan Mission (ELFCN)
New Life Ministries (NLMS) 
North American Baptist General Mission in Japan (NAB)
Norwegian Lutheran Mission (NLM)
OMF International (OMF)
OMS Christian Mission Church (OMS)
Reaching Japan Together Association/Reaching Japan Together (RJTA/RJT) 
SEND International (SEND)
The Christian and Missionary Alliance, Japan Mission (C&MA) 
The Evangelical Alliance Mission (TEAM) 
The Navigators (NAVS) 
The Redeemed Christian Church of God (RCCG)
WEC International (Worldwide Evangelization for Christ International) (WEC)
Wesleyan Mission in Japan (WM) 
World Gospel Mission (WGM)