Carbery signed a two-year contract extension with Munster in March 2019, which will see him remain with the province until at least June 2022. The ankle injury Carbery sustained whilst on international duty with Ireland at the 2019 Rugby World Cup was aggravated post-tournament, ruling him out for a number of games. He made his return from injury for the province on 28 December 2019, featuring off the bench in Munster's 13–6 defeat against Carbery's former club Leinster in round 9 of the 2019–20 Pro14. However, a wrist injury sustained after Carbery played the full 80 minutes in Munster's 38–17 defeat against Ulster on 3 January 2020 required surgery, and during his rehabilitation for that injury, it was decided that Carbery would also undergo surgery for the ankle injury sustained while on international duty during the world cup, ruling him out for the remainder of the 2019–20 season and indefinitely thereafter.