I try to be honest with my kids about my own views whenever there's a conflict with what's taught or said by someone at school or church. They know I don't agree with everything that's said, but they also know I genuinely love the people who say the things with which I disagree.
We just disagree; no big deal.
I'm going to disagree with lots of things lots of people say in my life, in every organization of which I'm a part. I know it's really hard to take the emotional reaction out of the picture, especially when it deals with a dad or mom or sibling or other loved one, but it is a skill my children are going to have to learn at some point, no matter what, if they are to be happy.
That's the central message I try to convey to my kids - that's it's fine to disagree, but it's not fine to reject or disparage. It's fine to disagree, but it's not fine to let disagreement void love.