In 1959, the Baptist Union of Victoria began work on a new building for the college and agreed to become an affiliated college of the University of Melbourne. The College is now one of 12 residential colleges associated with the University of Melbourne. In 1975, Whitley and the Stirling Theological College established the Evangelical Theological Association, which was accredited until 2005. Whitley and Stirling now are separate colleges of the University of Divinity. Theological courses are taught in a separate wing of the college, which forms part of the University of Divinity. This is a university of specialisation which offers programs in theological and ministry studies, ranging from diploma-level through to doctoral research.
The Geoffrey Blackburn Library at Whitley was built in 2001, and contains approximately 30,000 theological books. It also contains the Boreham Collection, which includes books by and about Frank W. Boreham, as well as items from his personal collection.
The School of World Mission was established in 1988 by Whitley College and World Vision Australia. SWM was located at Whitley College and taught practical ministry and mission courses and integrated biblical theology with social sciences.