For the 2011–12 season, Perrotta was usually used as a central midfielder alongside Daniele De Rossi and Miralem Pjanić. On 20 February 2012, Perrotta signed a new one-year extension to his contract with Roma that will keep him at the club until 2013. Perrotta's fixed gross fee for the current season was raised to €2.6 million plus performance bonuses. He played 20 matches in the 2011–12 season, failing to score a goal.