After leaving Services, Thangaraj played for Kolkata giants Mohammedan Sporting (1960–63, 1971–72), Mohun Bagan (1963–65), and East Bengal (1965–71) and was a huge fan favorite at the time. He was part of the Bengal team, which won the Santosh Trophy in 1963. Later, he led the Railways in 1965 and won the Santosh Trophy for them. Along with the likes of Chuni Goswami and P. K. Banerjee, Thangaraj was one of the mainstays of the Indian team in 1960s and 70s.
