The 2006 Northern Colorado Bears football team represented the University of Northern Colorado as a member of the Big Sky Conference during the 2006 NCAA Division I FCS football season. Led by first-year head coach Scott Downing, the Bears compiled an overall record of 1–10, with a mark of 0–8 in conference play, and finished ninth in the Big Sky. The team played home games at Nottingham Field in Greeley, Colorado.

On September 11, starting punter Rafael Mendoza was stabbed in the leg by backup punter Mitchell Cozad. Mendoza returned to the field for the September 23 game against Western Illinois. Cozad was convicted of second-degree assault for the stabbing in 2007.

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