In 2014, Cooper went with Craig Bohl to Wyoming where he served as the defensive ends coach and special teams coordinator until the end of the 2019 season. Additionally in 2019 he was the team's defensive run game coordinator.
In 2020 Cooper joined Nick Rolovich’s inaugural staff at Washington State as the defensive ends coach. Amidst the 2021 season, after the firing of multiple coaches who refused to get vaccinated for COVID-19, Cooper also took over responsibility for the entire defensive line adding defensive tackles to his plate. In 2022 he was retained as the team's edges coach and added the title of defensive run game coordinator.
Arizona State
In December of 2022 he was named the linebackers coach for Arizona State.