 Mukherjee's works encompass a variety of themes and subjects.These include subjects from Hindu mythology like "Ramcharitramanas", "Geet Govind", "Durgā Saptshahti", "Bhagvad Gita", and "Hanuman Chalisa", Kālidāsa's works like "Kumārasambhava", "Abhijñānaśākuntalam", and "Meghadūta", as well as themes from Jain and Buddhist mythologies.He has also painted modern subjects like Agyeya's "Sagaramudra".