For the next two years, Schnellenberger led the fledgling team through fund-raising, recruiting and practice. For their first practice in 2000, the Owls had 160 walk-ons and 22 scholarship players. FAU football played their first game on September 1, 2001, losing to Slippery Rock 40–7 after the FAU administration failed to certify 13 Owls starters in time to play. The very next game the Owls upset the No. 22 team in I-AA, Bethune–Cookman, finishing their first season 4–6. They regressed to 2–9 the following season, but went 11–3 and made the I-AA semifinals in their third. During their fourth season, the Owls posted a 9–3 record while transitioning to Division I-A, but were ineligible for both a bowl game and the I-AA playoffs because of their transitioning status.