In his first spell with Borussia Dortmund, he won the DFB-Pokal during the 1988–89 season. After moving to Italian side Juventus, he won the UEFA Cup in 1993, beating out his former club, Borussia Dortmund, 6–1 on aggregate, with Möller scoring one of the goals and providing three assists across both legs of the final. Upon his return to Dortmund, he won several domestic titles with the club, including consecutive Bundesliga titles in 1995 and 1996, as well as the Champions League in 1997, once again beating his former team, Juventus on this occasion, 3–1, and providing two assists during the match, while his corner also led to the opening goal; he followed up the victory with the Intercontinental Cup later that year, after which he was named "Man of the Match". With Schalke, he won the DFB-Pokal twice more in 2001 and 2002.