"It" refers to addressing small interpersonal irritations (called "pinches") before they escalate into major conflicts ("crunches").
Talk about a pinch before it becomes a crunch, and then it becomes a much bigger deal. But most of the time we say it's not worth it. So I always tell students, okay, substitute the pronoun, substitute the word it for I, you, we. I'm not worth it, you're not worth it. We're not worth it.