 In first match of the new season in Serie A, Jonathan assisted the first goal of Yuto Nagatomo in a 2–0 win over against Genoa, helping the team to make a fine start.In second match on 1 September, Jonathan made his second assist of the season by providing the pass for Rodrigo Palacio opening goal of the 3–0 away win against Catania.On 26 September, Jonathan scored his first league goal with Inter in a 2–1 win at San Siro against Fiorentina, giving his team the advantage in the 83rd minute after a powerful shot from inside the box.