Numerous animals dig holes and make tunnels. You may be seeing the work of chipmunks, squirrels, skunks, raccoons or shrews. Snakes also live in ground holes. Using an online wildlife key that leads you through descriptions of the damage is another way to discover which animal is making holes in your yard. Chipmunk holes, for example, are dime-sized, and you’ll see chipmunks around during the day. Skunks dig their holes under sheds, porches and other dark places.