According to the country's civil aviation authority, operations will resume at 5 PM UAE time on Friday.
On Thursday several UAE carriers were allowed to leave the country.
However the planes were flying without passengers with pilots only permitted to bring the aircraft safely home.
Air Arabia's flight G9825 was the first plane to leave Peshawar, bound for the emirate of Ras Al Khaimah.
Emirates flight EK637 also took off from the city, heading to Dubai.

Kenya tourist helicopter crash kills seven
US, South Korea to cut length, scope of military drills after Trump order
Central African Republic gold mine collapse kills at least 100
Israeli airstrike kills nine Palestinians at Gaza police station
Thai schools hold shooting response drills after deadly school attack