 After he led the team in the Willamette Invitational (sixth) and Pre-NCAA Invitational (12th), an injury brought Rupp's 2005 cross country season to an early end.In indoor track, Rupp placed fifth place in the 5000 m and sixth in the 3000 m at the 2006 NCAA indoor championships, earning All American status in both events.His 2006 outdoor season was brief due to the onset of hypothyroidism.