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If you're meaning the current BCS system (post 1997) it's a tie between Florida and LSU, both at 2 wins.
Florida and LSU have both won 2 BCS National Championship Games

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Q: Who won the most BCS national championships?
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Related questions

Whom has won the most BCS national championships ever?

Florida and alabama


How many BCS national championships has Alabama won?

1


How many BCS lsu championships?

LSU has won 2 bsc national championships


Has Michigan won the BCS championships?

No, their last national title was won 1997, the year before the BCS was invented in 1998.


How many bcs wins does Oklahoma have?

The Alabama Crimson Tide have won 13 BCS National Championships.


How many BCS national championships has Florida university won?

12


What college won the first BCS national championship?

Florida and LSU have each won two BCS championships. No one else has won more than one.


Who has won the BCS National Championships for the last 9 years?

LSU has the most BCS National championship wins in 1963,1968,1970,1973,1974,1989,1990,1991,1997,2003, and 2007 totaling 11 BCS titles won the most in NCAA history.The team with the second most wins are the Florida gators with 6 BCS titles 1911,1976,1996,1995,2006, and 2009.


Which college football conference has won the most BCS championships?

SEC


How many national championships has Auburn won?

Auburn has won two national championships in football: 1. 1957 (10-0; AP) 2. 2010 (14-0; BCS)


Who is the first coach to win 2 BCS National Championships?

Urban Myer became the first coach to win 2 BCS National Championships. The Florida Gators head coach won the championship in 2006 & 2009.


What team won the most BCS championships in the last 10 years?

LSU