The state-run Anadolu news agency said an Istanbul-based court issued the warrant for "ordering the July 15 coup attempt."
The government says Gulen, a former ally of President Recep Tayyip Erdogan who lives in self-imposed exile in Pennsylvania, masterminded the failed coup attempt by renegade officers in Turkey's military and wants him extradited to Turkey.
Gulen has denied involvement or prior knowledge of the coup attempt.
Anadolu said the court issued the warrant over a number of accusations, including an "attempt to eliminate the government of the Turkish Republic or to prevent it from carrying out its duties."
More From This Section
More specifically, Anadolu said the court based the arrest warrant on accusations the coup plotters tried to assassinate Erdogan, kidnapped Chief of Staff Gen. Hulusi Akar and other military officers, bombed parliament and killed police and civilians who resisted.
It is not the first time an arrest warrant has been issued for Gulen, who broke ranks publicly with Erdogan in 2013. In December 2014, a court issued a warrant for him on accusations of running an armed group.
Turkey has designated Gulen's movement, which runs charities, schools and businesses across the world, as a terrorist organization and has launched a widespread crackdown on suspected members since the failed coup.
Earlier today, Erdogan vowed to go after businesses linked to Gulen's movement.