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Yes, they will fill those seats. Idaho is in the top 5 for fastest growing states and the Boise Metro Area is in the top 10 fastest growing metro areas. In 1990, the Boise Metro area had 295,000 people in it; in just 20 years, it has grown to over 615,000 people, and that looks good for the television market.
Boise State’s come-from-behind 33-30 win against Virginia Tech earned a 7.3 rating, which tied USC-Ohio State as the best since Florida State-Miami 16 years ago. Boise is larger then the metro areas for many BCS schools including fellow western schools like Oregon, Oregon State, Washington State, and Stanford.
In that same 20-year period the attendance rate at Boise State University has risen from just 13,500 to 20,000 students, meaning more students, more fans. Boise State's inability to fill the stadium over the past decade does not come from lack of population or the team not winning. It comes from the opponents they play and on what days they play them.
You will see attendance jump this year as the Broncos move in to the Mountain West which has better competition. If BSU played teams like Oregon, USC, Washington, and Arizona every week by joining the PAC12, they would definitely sell out.
The same goes for Boise potentially joining the Big 12 because if Texas came to Boise, there would be no problem filling a 50,000-seat stadium. Playing Utah State on Wednesday does not equal playing TCU on Saturday in Boise.