1- The Constitutional Court.
2- The Justice Council.
3- The National Justice Chamber
4- The National Audit Chamber.
5- The Registrar of Organizations and Political Parties
6- The Public Grievances Organization.
7- The National Security Organization
8- The Central Bank of Sudan
9- The National Elections Commission.
10- The Human Rights Commission.
11- The National Commission for Judiciary Service.
12- The National Commission of the Civil Service
13- The Allocation and Supervision of the Financial Revenues Commission.
14- The National Lands Commission.
15- The National Petroleum Commission.
16- The Cease-Fire Political Commission.
17- The Evaluation and Execution of the Peace Agreement in South Kordofan and the Blue Nile Sates Commission.
18- Abyie Region Frontiers Commission.
19- Abyie Referendum Commission.
20- The Commission for the Protection of the rights of non – Muslims in the National Capital.
21- The Committee for the follow-up and the guarantee of Precision, Legality and Transparency in the Referendum.
22- The Joint / Merged Forces
23- The Peace Agreement Execution Evaluation Commission.
24- The National Commission for Constitutional Revision.
25- The Population Census Council
26- The Strategic Studies Centre
27- The International Peoples' Friendship Council.
28- The Quality Chancery.
29- Dams Execution Unit.
30- The National Council for the Coordination of disarmament, Demoblization and Re-Merging.
The High Council of Investment, which was established by a Republican Decision, at a later stage, also, follows the H.Qs. of this Ministry.