Their are alot of them.
Uni of So Cal
LSU Over Ohio state
Lousiana State University beat Ohio St. University for the National Championship.
Yes ... Troy won the NAIA national championship in 1968 and the NCAA Division II national championship in 1984 and 1987.
The Florida Gators defeated the Florida State Seminoles 52-20 to win the 1996 NCAA National Championship.
maybe this will help ...http://www.secsportsfan.com/top-all-time-ncaa-college-football-national-championship-conference.html