[8][9] After the 1985 season, Shafer transferred to Baldwin–Wallace College, where he played quarterback for the Baldwin Wallace Yellow Jackets from 1987 to 1989.

Playing in the Yellow Jackets' run and shoot offense, Shafer was ranked 17th in the nation in passing efficiency and earned team MVP honors.

Shafer began his coaching career as a graduate assistant to Bill Mallory at Indiana University from 1991 to 1992.

The team also graduated a first round pick in Vaughn Dunbar who was taken 21st overall by the New Orleans Saints in the 1992 NFL draft.

12 in the AP poll, recorded its first 10-win season in 20 years, and had three victories over BCS teams while holding them to an average of 15 points per game.

"[19] In December 2004, he was hired by Bill Cubit at Western Michigan University, where he was the defensive coordinator from 2005-2006.

Harbaugh was quoted as saying Shafer being "one of the most creative and innovative defensive minds in college football.

[20] Shafer's defense at Stanford ranked fifth in the nation with 37 sacks and posted 101 tackles for loss, which was good for 11th in the country.

[6] Shafer was hired as the defensive coordinator for the University of Michigan by new head coach Rich Rodriguez in 2008.

[21] Coach Rich Rodriguez announced on December 16, 2008, that Shafer had resigned after one season as defensive coordinator.

[22] Shafer was hired by Syracuse University head football coach Doug Marrone in 2009.

On January 20, 2017, Shafer was hired by Middle Tennessee State to serve as defensive coordinator under head coach Rick Stockstill.

He is the author of eight instructional videos that are distributed by Coaches Choice and teach lessons such as tackling, press coverage, and different defense packages.

Wolfgang was a quarterback for the Ithaca College Bombers, and has been a coach at Indiana State University.