I will say this as someone who has felt exactly as you do. I learned to simply apply core principles: in justice, the individual is responsible for his own actions. I love my country, but I hate my government. When I state it this way, it allows me to take pride in the ideals this country was founded on, and all of the history that our fellow patriots who have gone before have built. I can still love what we tried to do and what we profess to stand for. Those are good things.

But I can also reserve appropriate derision for the corrupt, the abusers, the betrayers, and the thieves who have wormed their way into power and instead of rising to meet our ideals, have abused the public trust for their own ends. That's evil and I can criticize it. But the actions of the individual do not take away from the ideals, even if it seems like a lot of individuals.

I had to learn to look at religion the same way. There are a lot of bad people who wrap themselves in the cloth and then succumb to evil, but that doesn't mean the overall message is bad, only that humans are inherently imperfect.

Edit: I will also add this. Patriots today have a moral obligation to hold those who fail responsible in order to re-establish fail in the ideals.