The FAA had previously warned American carriers to avoid flying over Syria. The new rule requires operators to contact the FAA before operating in the airspace. (Agencies)
The agency said the move was taken after "updated assessment of risk" and a lack of airlines wishing to fly in the airspace.
"The ongoing armed conflict and volatile security environment in Syria poses a serious potential threat to civil aviation," the FAA said in a statement.
Airlines have been paying close attention to flight paths over conflict zones since Malaysia Airlines Flight MH17 was downed by a suspected surface-to-air missile last month while flying over eastern Ukraine, where pro-Russia separatists are fighting Ukrainian troops. All 298 people on board died.
Syria is in the middle of a civil war in which 170,000 people have been killed since 2011.
The FAA also said "opposition elements" had warned civilian airlines not to provide service to Syria. Armed extremist groups in the country are known to be equipped with anti-aircraft weapons that could threaten civil aircraft, the agency said.
The ban applies to all U.S.-registered planes, commercial operators and FAA-licensed pilots. It makes an exception for flights operated with U.S. government permission and U.S.-registered aircraft operated by foreign carriers.
"Due to the presence of anti-aircraft weapons among the extremist groups and ongoing fighting in various locations throughout Syria, there is a continuing significant potential threat to civil aviation operating in Syrian airspace," the agency said.
The FAA this month also restricted U.S. airlines and commercial operators from flying over Iraq while armed conflict raged and the United States launched air strikes.
Information found on flightradar24.com, a website that provides real-time flight tracking services, shows that most major commercial airlines bypass both Syrian and Iraqi airspace.
The FAA had previously warned American carriers to avoid flying over Syria. The new rule requires operators to contact the FAA before operating in the airspace.