The discussion regarding the establishment of the Faculty of Mathematics and Natural Sciences (FMIPA) at Universitas Tanjungpura (UNTAN) was initiated by the Rector of UNTAN for the period from 1982 to 1991, Prof. Dr. H. Hadari Nawawi. This initiative led to the formation of the Management Board of Mathematics and Natural Sciences (BPMIPA) at UNTAN in 1992, as outlined in the Rector's Decree number 4669/PT29.H/E/1992, dated November 26, 1992. Subsequently, the management of BPMIPA was restructured in accordance with the Rector's Decree of Tanjungpura University number 193a/J22/KP/1999, dated April 1, 1999.

On November 9, 2001, the Director General of Higher Education at the Ministry of National Education issued letter number 3494/D/T/2001, granting permission to conduct the learning process for four undergraduate study programs: Mathematics, Physics, Chemistry, and Biology at Tanjungpura University. The selection process for student admissions began in the 2002/2003 academic year, which included both written and non-written tests, resulting in the admission of 160 students. In 2006, the Faculty of Mathematics and Natural Sciences (FMIPA) at Tanjungpura University was officially established through Rector Decree No. 119/J22/OT/2006, dated January 9, 2006.