The much-lauded leader will take over as president there Aug. 1.
Gottfredson is credited with helping to establish new schools in law and computer science as well as new programs in statistics and public policy and launching majors in public health and business.
At UCI, Gottfredson was responsible for planning and budgeting including managing $90 million in state funding cuts since 2007-2008.
"The budget has forced us to change the way higher education is financed," Gottfredson said in a prepared statement, "but we never changed our commitment to quality."
While at UCI, Gottfredson reportedly oversaw construction of more than 40 facilities valued at more than $1.8 billion, including the UC Irvine Douglas Hospital.
Chancellor Michael Drake said in a prepared statement that Gottfredson's work helped attract the best and brightest students and faculty despite budget cuts.
"I'm confident he will be an outstanding president," he said in the statement. "He'll be terrific in Oregon. We'll miss him and we wish him the very best."
Before coming to UCI, Gottfredson spent 15 years in academic and administrative roles at the University of Arizona. At UCI he also served as a professor of criminology, law and society.