The following structure has been established for the governance of Weill Cornell Medicine - Qatar:
- The Dean of WCM-Q reports directly to the Dean and Provost of Weill Cornell Medical College, and through him to the President of Cornell University, WCM Board of Overseers, and Cornell University Board of Trustees.
- The Cornell Boards of Overseers and Trustees are responsible, and provide oversight, for the operation of the academic programs.
- The Qatar Foundation provides, and is responsible for oversight of, the facilities.
- A Joint Advisory Board provides advice and assistance to the parties and to the Dean of WCM-Q. The Joint Advisory Board comprises four members selected by the Cornell Boards, four by the Qatar Foundation, and an additional three independent members who are selected jointly.