The Swedish Defence University board and directorate consists of the Board as the highest decision-making organisation, and the Directorate where the Vice-Chancellor is the highest decision-making director.

The Research and Education Board is responsible for the quality of research and education at undergraduate and graduate levels. The Swedish Defence University also consists of five organizational units:

The Directorate

The Swedish Defence University (SEDU) is headed by the Vice Chancellor, Pro Vice-Chancellor, Deputy Vice-Chancellor and University College Director.

Department of Security, Strategy and Leadership

Responsibilities include Political Science with two orientations; Crisis management and international cooperation and Security Policy and Strategy. Also included are International Law, Leadership under stressful conditions and War studies, with a focus on military strategy. Parts of the department are located in Karlstad.
The Department also includes The Centre for Societal Security.

Department of Military Studies

Responsibilities include the academic disciplines of Command and Control Science, Military History and Military Technology.
Is also responsible for officer training that leads to an officer's exam (The Officers' Programme) and higher military education (Higher Joint Command and Staff Programme and other academic education for officers, among these the Tactical Staff Course).

University Administration

Provides service and support for the University's staff and students.