Mukerji made his directorial debut with the coming-of-age film Wake Up Sid (2009), which opened to strong reviews and box office returns.

He later attended Rajiv Gandhi Institute of Technology but dropped out after the first year to assist Ashutosh Gowariker as a clapper boy on Swades (2004).

The film tells the story of a careless rich college brat (Kapoor) who is taught the value of owning up to responsibility by an aspiring writer from Kolkata (Sen Sharma).

Produced by Johar's banner Dharma Productions, it opened to widespread critical acclaim for its novel concept, themes, direction, story, screenplay, soundtrack and the performances of the cast.

Mukerji achieved his breakthrough with the romantic comedy-drama Yeh Jawaani Hai Deewani (2013), starring Kapoor and Deepika Padukone in lead roles, alongside Kalki Koechlin and Aditya Roy Kapur.

Yeh Jawaani Hai Deewani opened to widespread critical acclaim, with high praise for its direction, story, screenplay, soundtrack, cinematography, production design, costumes and the performances of its cast.

[11][12][13] Mukerji's next wrote and directed the big-budget fantasy film Brahmāstra: Part One – Shiva (2022) starring Kapoor, Amitabh Bachchan, Alia Bhatt, Mouni Roy and Nagarjuna in lead roles.

[15][16][17] Mukerji is currently shooting for the sixth installment of the YRF Spy Universe, titled War 2, which marks his first venture to not be produced by Dharma Productions.