The Seminary of Ss. Peter and Paul is a regional Seminary for the dioceses of the Ecclesiastical Provinces of Lagos, Ibadan and Benin City. The Conference of Bishops under the Chairmanship of the Archbishop of Lagos oversees the general formation programme of the Seminary. Responsible to it is the Seminary Commission, which meets twice annually and makes recommendations to the Conference. Members of the Seminary Commission are appointed by the Conference and it comprises four Bishops, the Rector, the Director of the Spiritual Year Programme, and an elected member of staff.
The Archbishop of Ibadan is the Chairman of the Commission, and acts in its name when the Commission is not in session. The commission is responsible for the academic and overall formative policies of the Seminary.