The university has campuses and facilities in Epsom, Farnham and Canterbury.
A statement released says Professor Jane Roscoe left “by mutual consent” on the 30th of May.
The role will be filled temporarily by deputy vice-chancellor Melanie Gray and chief operating officer Mark Ellul.
Prof Roscoe, who joined from the University of Greenwich in February last year, also acted as the university’s president.
PIC: Melanie Gray (left) and Mark Ellul (right).