Mr Pota, who was earlier with PepsiCo as COO-foods and beverages, will join JFL by the end of February, replacing Ajay Kaul, who had resigned in September last year.
He would assume the role and responsibilities as CEO and whole time director and key managerial personnel of the company from April 1, 2017.
JFL chairman Shyam S Bhartia and co-chairman Hari S Bhartia said: "We welcome Pratik to Jubilant, and are confident that with his rich experience and leadership, he will take the business to greater heights."
Mr Pota said: "I feel privileged...to be given an opportunity to lead India's largest food service company. The Indian food services industry is poised for rapid growth and JFL, being the frontrunner, is well positioned to leverage this opportunity. I look forward to be a part of this exciting journey."
Prior to PepsiCo, Mr Pota has worked with Bharti Airtel and Hindustan Unilever. He has over twenty-four years of experience in the FMCG and telecom industries.