How do I change the ranking of squirrels?

Add dominance to them, most dominant male is Alpha male, most dominant female is Alpha female, and so on.

You can also take away Dominance CP to change ranks. You can purchase a Stare Down at Realm > Barter to drop a wolf's Dominance back to 1, and a Roadrunner Fstuff cheeksher (which is found by chasing off the birdwatcher in the Desert but can also be bought from other players' Market nests) will cut a wolf's Dominance in half.