I think Clover reacts as the nurturer that she has always been. The book notes that if her thoughts could be spoken, this wouldn't be the result that they had aimed for when they started the rebellion. Clover feels like a mother, these animals all huddled around her similar to the way small animals worked their way into and around her legs during Old Major's speech. I think a mother feels the need to protect, and here she is not succeeding at that goal. That doesn't mean she is willing to rebel against Napoleon or disobey. It seems to be one of those situations that she knows things aren't right and she just can't put her finger on what might have gone wrong.
I assume that you are talking about the killings in Chapter 7 when you talk about "violent events." If that is the case, then the short answer to your question is that Clover gets very sad and starts to cry.
She is ambivalent about their revolution now. She knows that life is better than it was when Jones was running the farm. But she also thinks that this kind of violence was certainly not what they were hoping for when they rebelled against Jones and took the farm for themselves. And it is not what they aimed for as they worked so hard on the windmill and other projects.