For the second time in a month, the Falls Church City Council has trained its sights on video arcades, this time approving an ordinance requiring arcade owners to pay annual license fees of up to $200.

"Falls Church is a small city, only two square miles. At the moment we have three arcades. . . . We don't want this to become an attractive place for them to cluster," said council member Edward B. Strait, who introduced the fee proposal.

In mid-July the council passed an ordinance requiring new amusement arcades to be at least 1,000 feet from any church, school or other amusement arcade and no closer than 100 feet to a residential area.

Under the ordinance approved last week, arcade owners with more than 10 video machines will be required to pay a $200 annual licensing fee, while owners with three to 10 machines, will be charged a $100 fee.

In other action, the council reaffirmed its support for an equal rights amendment. It also agreed to appoint an ad hoc committee to study the possibility of constructing an outdoor stage near City Hall.

At the meeting, council member John Gannon, 38, who was elected in 1980, resigned. Gannon is a Foreign Service officer who is being transferred. His term expires in 1984. City residents interested in filling the remainder of Gannon's term must submit applications by today.