Mishion Kashmir is a film on the backdrop of violence ridden Kashmir. It revolves around a story of a young man, whose family members are victims of kashmir millitancy and the effect it has on his life. Hrithik Roshan's family members are killed in a shoot-out between the police and the millitants and is adopted by the I.G., Sanjay Dutt and his wife Sonali Kulkarni. One day he discovers that the masked person who had killed his family is none other than his own abba, he turns into a millitant himself and joins the terrorist, Jackie Shroff, who is sent by the neighbouring country to create turmoil. By mistake, Hrithik kills Sonali Kulkarni and Sanjay Dutt gets very violent. In the meantime, Jackie is out to complete his mission, Mission Kashmir. How Sanjay Dutt convinces and changes Hrithik's mind to fight against Jackie, is the rest of the story.