We got Pakistan, a separate country for the Muslims of India, on the basis of two nation theory. two nation theory does not mean, Muslims would have country in which only Muslims would stay. it means, Muslims would have a separate homeland in which they would practice the regulations of Islam. Islam makes people free to spend their lives according to their own religion and views. Hazrzat Muhammad(PBUH) signed a treaty with Jews and non Muslims of Madina. In which they agreed that people would be free to practice the rules and regulation according to their religion. They would cooperate with each other through thick and thin. we can observe such things in the treaty of Hudaibia and fateh Makkah.
In two nation theory we wanted a homeland in which we would practice such theory. I Would like to paste here the thoughts of Qaid-e-Azam, he said.
"The constitution of Pakistan has yet to be framed by the Pakistan Constituent Assembly. I do not know what the ultimate shape of this constitution is going to be, but I am sure that it will be of a democratic type, embodying the essential principle of Islam. Today, they are as applicable in actual life as they were 1,300 years ago. Islam and its idealism have taught us democracy. It has taught equality of man, justice and fairplay to everybody. We are the inheritors of these glorious traditions and are fully alive to our responsibilities and obligations as framers of the future constitution of Pakistan. In any case Pakistan is not going to be a theocratic State to be ruled by priests with a divine mission. We have many non-Muslims --Hindus, Christians, and Parsis --but they are all Pakistanis. They will enjoy the same rights and privileges as any other citizens and will play their rightful part in the affairs of Pakistan. Broadcast talk to the people of the United States of America on Pakistan recorded February, 1948.".

It shows that he did not want a secular country but Islamic.Dear! Objective resolution is not against the thoughts of Qaid-e-Azam. In objective resolution there is no point which contradicts the thoughts of Qaid-e-Azam.
The people from other religions are respectful for Pakistani Muslims. on the basis of gojra incident no one can say that the people from other religions are not peaceful here. they are spending their lives according to the constitution of Pakistan, which gives them special rights. Pakistani Muslims are not biased toward Pakistani non Muslim. when we compare Pakistan and India in this regard, we see that non Muslims in Pakistan have sufficient rights.