Pinzino coached several high school and American Legion baseball programs from 1997 through 2004. He began his college coaching career as an assistant at Pomona-Pitzer during the 1998 season. His first Division I coaching experience came as an assistant at Holy Cross during the 2002 season. He was then an assistant at Division III Tufts from 2003–2004. Pinzino received his first collegiate head coaching position with Division IIAssumption for the 2005 season. Under Pinzino that season, Assumption had an 11–28 record and finished ninth in the Northeast-10 Conference.
Prior to the 2006 season, Pinzino became the head coach at Bryant, at the time also a member of the Division II Northeast-10 Conference. After an 18–33 season in 2006, Bryant appeared in two consecutive NCAA Division II Tournaments in 2007 and 2008. For the 2009 season, Bryant's athletic programs began a transition to Division I, and the baseball program competed as an Independent. Bryant joined the Northeast Conference for the 2010 season and won the regular season conference championship. It did not qualify for the NEC or NCAA Tournament, however, because it was ineligible during its transition from Division II. During his tenure at Bryant, Pinzino was twice named conference Coach of the Year– once for the Northeast-10 and once for the NEC. Following the 2010 season, Pinzino was involved in an incident that led to his resignation. At a postseason athletic department barbecue in late May, Pinzino became intoxicated, started an altercation with an assistant baseball coach on Bryant's baseball field, and was confrontational with police when they arrived at the scene. Pinzino was arrested and charged with three misdemeanors. As a result, he was forced to resign as Bryant's head coach.
William & Mary
Following his resignation at Bryant, Pinzino spent two seasons as a Division I assistant. During the 2011 season, he served as the pitching coach at Northeastern. In 2012, he was an assistant to Frank Leoni at William & Mary. When Leoni was fired as William & Mary's head coach following the 2012 season, Pinzino was hired to replace him. In 2013, Pinzino's first season, William & Mary set program records with 39 wins and 17 conference wins. The team received an at-large bid to the NCAA Tournament, where it went 2–2, losing to NC State in the finals of the Raleigh Regional. Pinzino was named a 2013 Colonial Athletic Association Co-Coach of the Year.
In July 2016, he was named the next pitching coach at Virginia Tech. He was not retained by new head coach John Szefc.
Army
On July, 13th he was named the next pitching coach for the Black Knights. On May 30, 2020, Pinzino stepped down as the pitching coach at Army for non-baseball reasons.
Head coaching records
Below is a table of Pinzino's yearly records as an NCAA head baseball coach.
Personal life
Pinzino is married to Cheryl Milligan, head softball coach at Tufts.