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Did she petition? She should go to the first class for all those classes she got randomized out of. Usually (not always), the prof will let you in. She should also (obviously) register for some other classes in the meantime.
What classes were they? If they're intro bio, calc 2, big classes like that, this probably wouldn't make a difference, but if it's a small enough class, she should shoot the prof an email this summer, saying she registered, didn't get in, really interested because of XYZ.
Anyway, I wouldn't worry about it too much. It seems stressful now but everyone eventually ends up getting the courses they absolutely need and most of the courses they want.
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