Kanakimana spent the 2018 season with
Aigle Noir of the
Burundi Premier League, finishing as the league's top scorer with 23 goals across all competitions and leading his team to the league title. He was subsequently transferred to
MFK Vyškov on 1 January 2019 and was later loaned to
Atlanta United 2 on 12 April for the remainder of the season. On 17 February 2021, Kanakimana permanently joined
USL Championship side
Colorado Springs Switchbacks. On 7 May 2021, Kanakimana and Colorado Springs mutually agreed to terminate his contract at the club due to visa issues. On 20 January 2024, Kanakimana signed a multi-year contract with
Czech First League club
FK Jablonec. On 27 June 2025, Kanakimana signed a multi-year contract with
Czech National Football League club
Zbrojovka Brno. ==International career==