- (With Mark L. Plummer) The Aspirin Wars: Money, Medicine, and 100 Years of Rampant Competition, Harvard Business School Press, 1991
- (With Robert P. Crease) The Second Creation: Makers of the Revolution in 20th-Century Physics, 1986; rev. ed., 1995
- (With Mark L. Plummer) Noah’s Choice: The Future of Endangered Species, 1995
- (With David H. Freedman) @ Large: The Strange Case of the World's Biggest Internet Invasion, 1997
- 1491: New Revelations of the Americas Before Columbus, Knopf, 2005
- "Our Good Earth: The future rests on the soil beneath our feet; Can we save it?" National Geographic, September 2008. 80-107.
- 1493: Uncovering the New World Columbus Created, Knopf, 2011
- Charles Mann's website http://charlesmann.org/