Malhotra worked as an assistant director in the films such as Jodhaa Akbar, My Name Is Khan, and Jaan-E-Mann before remaking Dharma Productions Agneepath (2012 film).
Malhotra and his wife Ekta Pathak Malhotra began collaborating on the screenplay for Shuddhi which is slated for a Diwali 2016 release.
Malhotra has begun developing a new film for Dharma Productions with wife Ekta Pathak Malhotra. Whilst working on the script both Karan and Ekta made several research-based trips to Hrishikesh, one of the prominent shooting locations for the film. In March 2013, producer Karan Johar officially announced that Dharma Productions had begun pre-production on a new film venture titled Shuddhi.
Though initially speculated that Malhotra’s Shuddhi would be the theatrical adaptation of Amish Tripathi’s “The Immortals of Meluha”, it was later proven false. In September 2013, Karan Johar announced that Malhotra would be directing The Immortals of Meluha, but only after the theatrical release of Shuddhi. Varun Dhawan and Alia Bhatt will play the leads in the film.