Following his retirement from active football, Bisoli accepted an assistant coaching role at
Fiorentina, working alongside head coach
Emiliano Mondonico during the 2004–05 season. He then became head coach of
Serie C2 team
Prato, where he worked for two seasons. From 2007, he was the head coach of the newly promoted
Serie C1 side
Foligno, where he surprisingly won a promotion playoff spot in his first season with the club and then achieved a promotion playoff spot in his second season with the Umbrian minnows. From July 2008, he has been the head coach of
Cesena in the former Serie C1, now rebranded as
Lega Pro Prima Divisione, managing to guide the
bianconeri to win the league title in his first season in charge of the club. He was confirmed head coach of Cesena also for the 2009–10 season, which proved to be very successful as the club from
Romagna joined the race for direct promotion to Serie A, a league Cesena has not played in since 1991. He ultimately guided Cesena to a historical promotion in the final game of the season after the
Bianconeri from Romagna ended the league in second place, thus ending a 19-year absence from the top flight for his club. He left Cesena at the end of the season to join his former club
Cagliari, agreeing a contract with the Sardinian
Serie A club. His experience at Cagliari as a head coach, however, proved to be highly unsuccessful, and he was ultimately dismissed on 15 November 2010 after a 0–1 home loss that left the Sardinians in 19th place. On 26 May 2011, Bisoli was named as the new coach of
Bologna, but he was sacked on 4 October 2011, with the club the bottom of the table and replaced by
Stefano Pioli. In the
2013–14 Serie B he successfully led Cesena to triumph in the promotion playoff and back to the top flight. He was however dismissed on 8 December 2014 due to poor results, with Cesena deep in the relegation zone. He was subsequently appointed as head coach of
Serie C club
Padova for the 2017–18 season, during which he led the club to win the league title and direct promotion to
Serie B. Confirmed for the following campaign in the Italian second tier, he was successively sacked on 6 November 2018 due to poor results. He was reinstated as the head coach of Padova on 28 December 2018. He was named head coach of struggling Serie B club
Cremonese on 5 March 2020 and successively confirmed for the
2020–21 Serie B season after guiding the team to safety. However, he was sacked on 7 January 2021 due to poor results. On 17 February 2022, he was unveiled as the new head coach of Serie B club
Cosenza until the end of the season. On 15 June 2022, after guiding them to safety, Cosenza announced that Bisoli will not continue coaching the club. On 29 August 2022, Bisoli was announced as the new head coach of newly-promoted Serie B club
Südtirol. After guiding Südtirol to an impressive season and a spot in the promotion playoffs, he was confirmed in charge of the club for the
2023–24 Serie B season, during which he failed to maintain the club in the higher positions of the league table. He was sacked on 4 December 2023 following a 0–1 home loss to
Como, leaving Südtirol in 13th place. On 14 April 2024, Bisoli signed for Serie B club
Modena, agreeing on a contract until 30 June 2025. He was dismissed on 4 November 2024, with Modena second to bottom in the Serie B league. On 9 December 2024, Bisoli was hired as the new head coach of Serie B club
Brescia, the team being captained by his son
Dimitri. On 23 March 2026, Bisoli was unveiled as the new head coach of relegation-threatened Serie B club
Reggiana until the end of the season. ==Personal life==