Program oversight is primarily conducted by designated faculty within each program, who are certified by the University of Missouri-Kansas City to chair and serve on doctoral supervisory committees. These faculty members are responsible for developing and implementing students' doctoral plans of study and evaluating their qualifications for the Ph.D. degree. The School of Graduate Studies and the UMKC Graduate Council provide assistance and support in this process.

An executive committee of the Discipline Coordinators, chaired by the Interdisciplinary Ph.D. Program Director, governs Interdisciplinary Ph.D. studies. This committee collaborates to establish policies governing the program, ensuring representation from various academic areas. This collaborative effort allows for the review and refinement of program goals, procedures, and policies, with any significant changes requiring approval from the doctoral faculty.