He returned to the Toronto Blue Jays organization in November 1992 as minor-league hitting instructor. He was placed in an awkward position by the organization during the players' strike that canceled the end of the 1994 season. When the owners decided to go with replacement players the following spring, the Blue Jays determined that they would prefer that manager Cito Gaston and his major league staff not work with the strike-breakers. Instead, Hebner and fellow minor league coaches Bob Didier and Reggie Cleveland were given the task while Gaston worked with minor leaguers who would not be asked to break rank.