On 5 May 2012 Córdoba announced that he would leave Inter at the end of the season. A day later, Córdoba was brought on in the 84th minute of the Derby della Madonnina, making his last competitive appearance in an Inter shirt after 13 years in the San Siro; during the match (the club's last home game of the 2011–12 season), Inter's players wore the Córdoba #2 shirt while warming up before the kick-off. In May, he traveled with 18 other Inter players (with Dellafiore an exception) to Indonesia for a friendly tour, before ending his career.