Gee, John. ""Choose the Things That Please Me": On the Selection of the Isaiah Sections in the Book of Mormon." In Isaiah in the Book of Mormon, edited by Donald W. Parry and John W. Welch, 67-91. Provo, UT: Foundation for Ancient Research and Mormon Studies, 1998.

Gee, John. The Crocodile God of Pharaoh in Mesopotamia In Insights. Vol. 108. Foundation for Ancient Research and Mormon Studies, 1996.

Gee, John. "On Corrupting the Youth." The FARMS Review 22, no. 2 (2010): 195-228.

Gee, John. "Conclusions in Search of Evidence." Interpreter: A Journal of Latter-day Saint Faith and Scholarship 34 (2020): 161-178.

Gee, John. "The Corruption of Scripture in Early Christianity." In Early Christians in Disarray: Contemporary LDS Perspectives on the Christian Apostasy, edited by Noel B. Reynolds, 163-204. Provo, UT: Foundation for Ancient Research and Mormon Studies, 2005.