On his debut in a pre-season friendly against FC Basel on 10 July 2013, Mkhitaryan set up a goal for Marco Reus in the 11th minute and scored his first goal for the club 16 minutes later, helping his side to a 3–1 victory away at St. Jakob-Park. Mkhitaryan couldn't take part and wasn't listed in the squad at the 2013 DFL-Supercup which his club won due to an injury he received on a friendly game before that. Mkhitaryan debuted for Dortmund following his return from a three weeks sustained injury in the second round of 2013–14 Bundesliga on 18 August 2013 in a home victory over Eintracht Braunschweig at Signal Iduna Park. Mkhitaryan's first two Bundesliga goals were decisive in a 2–1 win over Eintracht Frankfurt to keep Dortmund in first place in the Bundesliga. His first Champions League goal for Dortmund came in a 2–1 away win against Arsenal.