[5] The following year, he led Torino to a historic UEFA Cup final during the 1991–92 season, lost on aggregate to AFC Ajax.

[4] In 1994, he returned to Atalanta for a second time, and later had a second spell with Torino as well between 1998 and 2000, before coaching Napoli during the 2000–01 season, although he was unable to help the club avoid relegation to Serie B.

[9] He stepped down as head coach of AlbinoLeffe on 29 January 2011 due to "serious health issues", with his assistant Daniele Fortunato taking over on an interim basis.

[14][15] He guided AlbinoLeffe to narrowly escape relegation after defeating Piacenza in the playoffs, but on 13 June he held an emotional press conference to announce that the illness had returned during the final period of the season and that he was seriously considering stepping down as a consequence.

[16] On 17 June 2011, Mondonico was confirmed to have resigned from AlbinoLeffe in order to focus solely on cancer treatment; he was replaced by his assistant Daniele Fortunato, who had already undertaken the first team coaching duties during his previous sick leave.

[17][18] On 30 January 2012, Mondonico marked his Serie A comeback, replacing Attilio Tesser as head coach of Novara, who were last-placed in the Italian top flight and seven points shy of relegation safety after the first half of the season.

[21][22][23][24][25][26][27][28][29] He also used Brazilian centre-forward Walter Casagrande in a role known as the "centravanti di manovra" (which literally translates to "manoeuvring centre-forward") in Italian football jargon, a precursor to the modern false-nine role, in which he was seemingly positioned as a lone striker, but dropped deep to help his team and be involved in the build-up, rather than looking to score goals.