Yes, free speech applies.
As does this:
“If you apply for a visa to enter the United States and be a student, and you tell us that the reason why you're coming to the United States is not just because you want to write op-eds, but because you want to participate in movements that are involved in doing things like vandalizing universities, harassing students, taking over buildings, creating a ruckus, we're not going to give you a visa. If you lie to us and get a visa then enter the United States, and with that visa, participate in that sort of activity, we're going to take away your visa.”
The comments come amid two more high-profile detentions by ICE of a Tufts University student and a University of Alabama student.
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