He was selected for his national squad at the Copa América Centenario and was part of the Argentine side that reached the final. The defender played in the final where Chile won 4–2 on penalties after the match finished in a goalless draw. He was not selected as one of the first four penalty takers. Funes Mori scored his first international goal on 6 October 2016 in a 2–2 draw against Peru in a match which he also conceded a late penalty.