Of course. Bias and prejudice is always a real concern. In situations where the teacher gets it wrong and punishes the bullied kid, the kid learns an unfortunate but useful lesson; that some agents of the system cannot be relied on.
But the zero tolerance response to this circumstance ensures the bullied student is prejudiced against, judging him guilty before considering the facts of the individual circumstance. What does that teach the kid? That the system itself cannot be relied on.