At the University of Michigan, Skrepenak was a two-time All-American, a two-time "All Big Ten" selection and a two-time "Big Ten Lineman of the Year". Skrepenak, who wore #75 for the Wolverines from 1987 to 1991, was also recognized as a "Samaritan All-American" for his community service. Number 75 for the Wolverines is described as the biggest player to have ever played for Michigan at , . As a four-year starter, he set the school offensive line record with 48 starts. In addition, he helped his running backs set new standards in yards/carry for Michigan football. During his time at Michigan, Skrepenak played for four consecutive Big Ten Conference Champions, appeared in three Rose Bowls and won a Gator Bowl MVP. His teams under Bo Schembechler and Gary Moeller compiled a 29–2–1 Big Ten record and each of his teams ended the season ranked in the top 10.