Pees then took the defensive coordinator job, under Nick Saban, at the University of Toledo, which he held for four seasons with the team.

After the 2005 season, Pees was promoted to defensive coordinator, replacing Eric Mangini, who became the head coach of the New York Jets.

[5] On January 21, 2021, Pees was hired by the Atlanta Falcons as their defensive coordinator under head coach Arthur Smith.

[7] On October 9, 2024, the Baltimore Ravens hired Pees as a senior advisor to defensive coordinator Zach Orr.

They previously worked together on the Titans and Falcons, where Matt was a quality control coach and defensive assistant, respectively, under his father.