It has its headquarters in Nairobi South C. The story of the Presbyterian Church of East Africa (PCEA) begins with a business company, when in 1889 Sir William Mackinnon and Mr. Alexander Low Bruce, made private plans for a Scottish Mission among the Kamba and Maasai and later to the Kikuyu people.

In 1893 mission work was strengthened by the arrival of Mr. John Paterson who introduced basic agriculture and the first coffee seeds.

[3] Owing to the infestation of Kibwezi by Malaria and the subsequent loss of life of Missionaries, Mr. Thomas Watson visited Dagoretti in 1894 to explore possibilities of transferring the mission station.

Other notable CSM missionaries of this period include Revd Dr John Arthur, who worked with the Alliance of Protestant Missions.

[6] In 1936 the separation of the overseas Presbytery of Kenya to cater to the colonial and continental work was done by the General Assembly of the Church of Scotland.

In 1946 the gospel missionary society (GMS), an American-oriented Church based at Kambui in Kiambu, joined the overseas Presbytery of Kenya.

[7] The Presbyterian Church in Eastern Africa has approximately 4,000,000 members,[8] over 1,000 congregations and 313 parishes and hundreds of house fellowships.