Apaxco has many native animals. Birds include the owl, eagle, falcon, turkey, colibri, turkey vulture, northern mockingbird, rufous-crowned sparrow, lesser roadrunner, and roadrunner. The reptiles and amphibians include rattlesnakes, pine snakes, xincoyotes, axolotls, frogs, and toads. The insects include red ants and bees. Apaxco has two mountain ranges, where there is a diversity in mammals. To the south is Cerro Mesa Ahumada with cacomistle, skunk, gopher, Virginia opossum, rabbit, and Mexican gray squirrel and to the north the Sierra de Tetzontlalpan is home to bobcat, coyote, and hare.