Gee, John. "Prolegomena to a Study of the Egyptian Alphabet Documents in the Joseph Smith Papers." Interpreter: A Journal of Latter-day Saint Faith and Scholarship 42 (2021): 77-98.

Gee, John. "Four Idolatrous Gods in the Book of Abraham." Interpreter: A Journal of Latter-day Saint Faith and Scholarship 38 (2020): 133-152.

Gee, John. "Has Olishem Been Discovered?" Journal of the Book of Mormon and Other Restoration Scripture 22, no. 2 (2013): 104-107.

Gee, John. "Formulas and Faith." Journal of the Book of Mormon and Other Restoration Scripture 21, no. 1 (2012): 60-65.

Muhlestein, Kerry M., and John Gee. "An Egyptian Context for the Sacrifice of Abraham." Journal of the Book of Mormon and Other Restoration Scripture 20, no. 2 (2011): 70-77.

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

Gee, John. "A Tragedy of Errors." Review of Books on the Book of Mormon 4, no. 1 (1992): 93-119.