In 1988, when Duquette became the Montreal Expos' director of player development, Jauss was hired by field coordinator Jerry Manuel as a manager in the Expos' farm system. Between 1988 and 1994, Jauss managed the Gulf Coast Expos, West Palm Beach Expos, and Harrisburg Senators. He compiled a record of 188–151 in that role and was named the Eastern League Manager of the Year in 1994. He also managed winter baseball in the Dominican Republic and led Licey to the Caribbean Series title in 1999. That winter, Jauss was named Manager of the Year. In 1995, Jauss was the field coordinator for player development of the Baltimore Orioles, and the following year, he became the advance scout for the Boston Red Sox, reunited with Duquette.