The theological institute took place in Nairobi for 1 week in December 2009. The advisory committee on theology underlined the importance of these initiatives. It was recommended to gather them again without delay, with the assumption that the 10th general assembly will also be attended by some young theologians, including those who have been meeting regularly and know one another.

The 3rd theological institute took place in Nairobi, 4-10 December 2011, at Desmond Tutu Conference Center. The theme was Africa towards peace, justice, and dignity.

The 4th Theological Institute was formed during the golden jubilee celebrations in the 10th general assembly, which took place on 3rd -9th June 2013 in Kampala, Uganda. 107 young theologians who were among the participants formed the Theological Institute of the assembly.

The 5th Theological Institute planned on the Theme: “The Imperative of Unity for the mission of Churches in Africa” was held from 8th – 12th December 2014 at the Desmond Tutu Conference Centre here in Nairobi. This Institute gathered 40 young theologians drawn from member churches of AACC representing the various denominations and regions of Africa.  Participants were drawn from a database of those who have attended previous institutes as well as new students from theological institutions in Nairobi.  The focus of the Theological Institute was on Leadership development focused on ‘Effective Mission of Churches in Africa’.

The 6th Theological Institute planned on the Theme: Theology as a Transforming Tool to Overcome Poverty in Africa. It was held from 5th to 9th October 2015 at the AACC Desmond Tutu Conference Centre in Nairobi. This Institute was attended by 44 young theologians drawn from AACC Member churches representing the various denominations and regions of Africa and enriched by 2 young theologians from Sweden and one theologian from Germany.  The focus of the institute was pastoral leadership development focused on use of theology as a transforming tool to overcome poverty in Africa.

The 7th Theological Institute which took place from 6th  to 8th  December 2016 at the AACC Desmond tutu Conference Centre.  The institute gathered fifty-seven (57) young theologians from the AACC Member churches in Africa enriched by participants seconded by the United Methodist church Global Ministries.  The countries represented were Botswana, Burundi, Cameroon, DRC, Egypt, Ghana, Kenya, Lesotho, Madagascar, Malawi, Mozambique, Nigeria, Rwanda, South Africa, Tanzania, Uganda, Zambia and Zimbabwe. The theme of the institute was, “Respecting the Dignity and God’s Image in Every Human Being.”

The AACC convened its 8th Theological Institute on the sidelines of the 11th General Assembly from 24th June 2018 to 7th July 2018, in Kigali, Rwanda, at the ISANO Presbyterian Center. The institute was attended by 65 participants from 22 African Countries, enriched by two young theologians from outside Africa, namely, Syria and Germany

The core courses taught at the institute were categorized into four thematic sections, which introduced the missiological challenges in Africa with regard to the theme. These were: The Context of African and Global Christianity and its role in transforming the world; Dignity and God’s Image in Every Human Being; Ethics and respecting the Dignity in every human being; and Perspectives of the future for African Ecumenism.

The 9th Theological institute was officially opened on 7th November 2023 at the First Baptist Church – Garki Abuja Nigeria, after which the students joined and participated in the 12th General Assembly and 60th Anniversary. Fifty (50) young theologians below 35 years and (5) facilitators drawn from all over the continent participated in the institute. According to Fr. Dr. John Njoroge, AACC’s Executive Secretary for theology and interfaith relations; “the 9th theological institute will foster a deep understanding of theological concepts, ignite meaningful dialogues, inspire and produce transformative ecumenical leaders who build the body of Christ (Ephesians 4:12)”.