On 29 June 2015, Kári returned to his country of birth, signing a two-and-a-half-year contract with Malmö FF. Malmö FF sold their two starting centre-backs in the same transfer window, and he formed a new centre-back pairing with Rasmus Bengtsson. The team continued to struggle in their league campaign, but qualified for the 2015–16 UEFA Champions League group stage. In a team with many newly signed players, Kári had quickly become a leader and was appointed vice-captain by Åge Hareide. The team was able to get back to its winning ways during the 2016 season. With captain Markus Rosenberg injured, Kári wore the armband during the final title run and led the team to secure the Allsvenskan title with two games to play.