The 1999 Troy State Trojans football team represented Troy State University—now known as Troy University—as a member of the Southland Football League during the 1999 NCAA Division I-AA football season.
Led by ninth-year head coach Larry Blakeney, the Trojans compiled an overall record of 11–2 with a mark of 6–1 in conference play, sharing the Southland title with Stephen F. Austin.
For the second consecutive season and the sixth time in seven years, Troy State advanced to the NCAA Division I-AA Football Championship playoffs, beating James Madison in the first round before losing to Florida A&M in the quarterfinals.
[1] The team played home games at Veterans Memorial Stadium in Troy, Alabama.
This college football 1990s season article is a stub.