Morgan had an unproductive start to the 2013 ICC Champions Trophy, making a score of 8 against Australia, then 13 against Sri Lanka. With England needing to beat New Zealand to qualify from their group, Morgan made 15 to help England secure a victory. In the semi final against South Africa, he made an unbeaten 15 to help guide England to victory and reach the final against India. He made 33 in the final, which turned out to be a low-scoring affair, but could not get England over the line as they finished the tournament as runners up.