Lisa is reading a newspaper, walking near the subway in New York City.
One of the rogue CIA agents shoots a dart into her neck, to dope her up and immobilize her.
Once Lisa is doped up and woozy, it is easy for the rogue agents to grab her and take her away.
The fact that the Lisa character wears a kufiya in this scene indicates nothing except that she is a fairly normal college student in New York City in the mid-1980s, when the kufiya was fairly mainstream wear for youth living there. The Lisa character is not depicted as particularly hip or as politically progressive. All it "means" then is that the kufiya was typical street gear, at this time and in this space.