After receiving his degree, he returned to Saint Francis High School as a teacher and coach. He coached the football, baseball, and basketball teams at Saint Francis.[1]
In February 1983, he was hired as the head football coach at the University of San Diego.[2] He held that position until 1995, compiling a record of 67–54–3 and leading the program from Division III to Division I-AA.[1][3] He resigned the post in May 1996.[4][5]
Fogarty remained at the University of San Diego, working in administrative and development roles until his retirement in August 2017.[1] In 2009, the National Football Foundation presented Fogarty with the NFF Chapter Leadership Award.[6] As a tribute to Fogarty, San Diego's first home game each year is titled the Brian Fogarty PFL Classic.[7]