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.

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. "Epigraphic Considerations on Janne Sjodahl’s Experiment with Nephite Writing." Journal of Book of Mormon Studies 10, no. 1 (2001): 25, 79.

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

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

Gee, John. "Verbal Punctuation in the Book of Mormon I: (And) Now." Interpreter: A Journal of Latter-day Saint Faith and Scholarship 50 (2022): 33-50.

Gee, John. "Verbal Punctuation in the Book of Mormon II — Nevertheless." Interpreter: A Journal of Latter-day Saint Faith and Scholarship 57 (2023): 195-206.

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

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

Gee, John. The Role of the Book of Abraham in the Restoration. Provo, UT: Foundation for Ancient Research and Mormon Studies, 1997.