The Indians were among 182 people, including 36 foreigners, who were brought to Pakistan's port city of Karachi on Tuesday after being evacuated from Yemen by a Pakistani naval ship.
An official said that the plane took off from Karachi at about 4 pm local time and is going to New Delhi.
Prime Minister Nawaz Sharif Tuesday offered a special plane to take them back to India which was accepted by the Indian government.
The 182 people were evacuated by the PNS Aslat from Yemen's southeastern city of Mokallah, which is now almost entirely under control of al-Qaeda militants.
Indian authorities had also evacuated Pakistani nationals from the Yemeni port of Al Hodeidah last week.

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