The university was formed by the merger of the University of Natal and the University of Durban-Westville, in 2004.
The Council of the University of Natal voted on 31 May 2002 to offer the post of Vice-Chancellor and University Principal to world-renowned medical scientist and former Medical Research Council President – Professor Malegapuru Makgoba, who assumed office on 1 September 2002.
He was entrusted with leading the University of Natal into the merger with the University of Durban-Westville. In so doing, he became the last Vice-Chancellor of the University of Natal. Professor Makgoba succeeded Professor Brenda Gourley as Vice-Chancellor.
Having served a brief stint as the interim Vice-Chancellor in 2004 he was formally appointed as the founding Vice-Chancellor of the newly merged University of KwaZulu-Natal. He was installed at a ceremony on 30 September 2005.
Professor Makgoba served two five-year terms of office and retired in 2015. His tenure, however, was plagued with controversies. Makgoba is said to have created a "culture of hostility" at the university that resulted in an exodus of world-class academics.