Protesters reportedly shouted anti-American slogans, burned tires, and threw rocks.
The low-budget film, produced in California, has sparked days of anti-American violence that has caused the deaths of 17 people in a number of Muslim countries, including the U.S. ambassador to Libya.
Supporters of the Shi'ite militant group Hizballah were expected to hold a protest against the film in Beirut later on September 17.
Lebanese Foreign Minister Adnan Mansour says he has asked Arab League Secretary-General Nabil El-Araby to organize an emergency meeting of Arab foreign ministers to discuss the film.
U.S. officials have condemned the film but noted that such free speech is permitted under the U.S. right to free speech.