The Faculty of Medicine at the Northern Border University was established in (1427 AH-2007 AD) after the historic visit of the Custodian of the Two Holy Mosques, King Abdullah bin Abdulaziz Al- Saud, may God have mercy on him, to the northern border region, where during the visit several colleges were established, one of which was the Faculty of Medicine in Arar and is considered the first medical college in the northern border region. After that, 30 male and 30 female students were admitted. This program was adopted from King Abdulaziz University in Jeddah to introduce essential medical subjects, followed by teaching clinical courses and an internship year. The study system in the first and second years adopts the semester system, and in the following years, from the third to the sixth, the method of short integrated units (Modules) where the student devotes himself to completing one course in a specific period and completing it before the start of the study of the next course. Male students studied in the science building (previously called the Education Collage building ), and female students studied in the health college in the Al Musaedia district. In 1433 AH, the clinical sciences students were transferred to the clinical affairs building of the Faculty of Medicine next to Prince Abdulaziz bin Musaed Hospital.

The Faculty of Medicine strive to develop the curriculum by updating study plans for the Bachelor of Medicine and Surgery program in 1437 AH to meet the requirements of academic accreditation and the needs of the labour market. Furthermore, due to the importance of knowledge exchange and international cooperation, the Northern Border University has signed cooperation agreements with George Washington University in the United States of America and the French University of Rouen to train outstanding students of the clinical years at the Faculty of Medicine during the summer vacation. Praise be to God.

The distinguished graduates of the Faculty of Medicine at the university achieved advanced positions annually among their peers in Saudi medical colleges in the Saudi Medical License (SMLE). This is according to the Saudi Commission for Health Specialties test. In addition, most of them have been assigned to programs such as Saudi, Arab, Canadian, and American Boards.