The religious beliefs of the creators of Pakistan and their ideology of an Islamic nation were completely different to how this country is right now. This study is designed to help understand the concept of extremism and religious intolerance one of the most sensitive issues to the security of Pakistan. Unfortunately this extremism has destroyed the global image of not only Pakistan but all the Muslims around the world. This paper tells about the genesis and the origin of extremism, different effects of extremism and in the end it also gives measures to improve the current situation of the country.