 He also made his Coppa Italia debut with the club on 31 August 1983, against Palermo, and he scored his first Coppa Italia goal in a 4–2 away loss to Empoli, on 26 August 1984.During the 1984–85 Serie C1 season, under manager Bruno Giorgi, he scored 12 goals in 29 appearances, helping the club to gain promotion to Serie B. Baggio began to draw the attention of larger Italian clubs, in particular Serie A side Fiorentina, and his playing style was compared to that of his idol, Zico.Baggio was also awarded the Guerin d'Oro in 1985 as the Best Player in Serie C.

During the end of his final season at Vicenza, Baggio shattered both the anterior cruciate ligament (ACL) and the meniscus of his right knee while playing against Rimini on 5 May 1985, while attempting a slide tackle.