His last season as a player was with the Triple-A affiliate of the Padres (Las Vegas Stars) and Minnesota Twins (Portland Beavers) in 1987.

The same year that his playing career was over (1989 in the Puerto Rican Winter League) he became a full-time scout for the Minnesota Twins.

While working as a Scout he earned his BBA (1993) at the Pontifical Catholic University of Puerto Rico with an Accounting degree.

[citation needed] In 1997 he began his career as a Scout and Manager in the minor leagues simultaneously with the new Tampa Bay Rays franchise.

He previously spent two seasons as manager of the Florida Marlins' Gulf Coast League affiliate from 2005 to 2006 and served as hitting coach for the Double-A Carolina Mudcats in 2004.

On June 23, 2010, Rodríguez became the interim manager for the Florida Marlins replacing Fredi González and won his first game against the Baltimore Orioles on the same day.