The first master's program was in Educational Management and Direction, and it was created as part of the School of Arts in the academic year 1968/1969, which is six years following the establishment of The University of Jordan. In 1973, the Deanship of Scientific Research and Graduate Studies was set up.

On June 3rd 1984, the deanship was split into two deanships: the Deanship of Scientific Research and the Deanship of Graduate Studies. The Deans' Council recommended the establishment of the School of Graduate Studies on June 12th 1984. The Royal decree announcing the establishment of the School of Graduate Studies was issued on January 2nd, 1985. The establishment of this scientific edifice aimed at preparing high-level academic qualifications and managing the graduate studies affairs on the university level in all humanities, scientific and medical specializations.

​Ever since its establishment, the School of Graduate Studies has been concerned with boosting the local and international markets with modern scientific master's and doctoral programs as well as high specialization programs in the fields of medicine and dentistry. It has also been working on assuring the quality of scientific research and university theses and dissertations according to international standards.