The Australian national left on an EgyptAir flight to Larnaca, Cyprus.
Greste was released following a presidential “approval”, officials said, following a new deportation law passed last year.
Egyptian-Canadian Mohammed Fahmy, Egyptian Baher Mohammed, and Greste were sentenced to at least seven years in prison on terrorism-related charges last year in a trial described as a sham by rights groups. There was no immediate word on the other two journalists.
The release of Greste, 49, who also holds Latvian nationality, was welcomed by Al-Jazeera and Amnesty International, but both said the fate of the other journalists must not be forgotten.
Acting Al-Jazeera director general Mostefa Souag says the Qatar-based network “will not rest until Baher and Mohamed also regain their freedom”.
Hassiba Hadj Sahraoui, Amnesty International’s deputy director for the Middle East and North Africa, welcomed the news of Greste’s release but said “nothing can make up for his ordeal”.
“It is vital that in the celebratory fanfare surrounding his deportation the world does not forget the continuing ordeal of Baher Mohamed and Mohamed Fahmy, who remain behind bars at Tora prison in Cairo.”
The three were arrested over their coverage of the violent crackdown on Islamist protests following the military overthrow of President Mohammed Morsi in 2013. Egyptian authorities accused them of providing a platform for Mohamed Morsi’s Muslim Brotherhood, now declared a terrorist organisation.
The three were also convicted for spreading false information, faking reports to show that the country was on the verge of civil war, and for aiding the Brotherhood’s goal of portraying Egypt as a failed state. Mohammed received an additional three years for his possession of a spent bullet. Three other foreign reporters received a 10-year sentence in absentia. Twelve other co-defendants were sentenced to between seven and 10 years, some of them in absentia.
Rights groups and several media outlets condemned the verdicts as political.
According to a law passed late last year, Egyptian president Abdel-Fattah el-Sissi has the power to deport foreign defendants or convicts.