Vanhoutte progressed through the youth teams of KSC Wielsbeke and Zulte Waregem before finally ending up in the youth academy of Cercle Brugge. In July 2018, he was promoted to the first team and signed his first professional contract alongside fellow youth prospect Robbe Decostere.[2]
On 1 September 2019, Vanhoutte was sent on loan to Tubize together with teammate Robbe Decostere on a one-year deal.[5] Vanhoutte played regularly, but was unable to prevent the club from suffering relegation to the Belgian Division 2.
After his loan spell, Vanhoutte became a permanent starter at Cercle Brugge, where he signed a contract extension until June 2023 in December 2020, just like fellow academy players Decostere and Thibo Somers.[6]
On 22 June 2023, Cercle Brugge announced the sale of Vanhoutte to Union Saint-Gilloise.[7]