Libertarians should be protesting against violence toward the unborn child... libertarianism's core principle is nonviolence towards others.
This is why I'm a Libertarian who largely opposes abortion on a purely personal level, but is 100% pro-choice on a political level. But at the same time, I can respect those who hold the other position based on the NAP. I'd just argue that with no objective way to resolve the dispute, it's best to not bring the State into it.