Rahul Bheke made his professional debut with Air India FC in 2011. After representing the likes of Mumbai FC and East Bengal, he played for Kerala Blasters FC in Hero ISL 2015. Thereafter, he went on to represent FC Pune City in Hero ISL 2016, playing 10 games for the Stallions. In 2017, he was picked up in the Hero ISL 2017-18 draft by debutants Bengaluru FC. He has recently signed a contract extension with the Blues that will keep him in the club till 2021.