The male isn't allowed in the den with the pups, but if she still has a mate and or helper, they will be around some place close, they will be keeping a low profile with newborn pups in the area. You may not see them, but they are close by. In my area they don't always use the same den holes as they have in the past. Here they will clean out several holes then pick one to use when the time comes, she will stay with the new pups for a few days without leaving the den at all. If she did have her pups in the same hole, they are like a dog's pups and have their eyes closed for several days, then mom will venture out, if you can remember how your female dog behaved when she had her pups that is pretty close to how a coyote does. So many times, when they first have pups, they just lay low during the day close to the den during the day and move at night to feed and drink. She might only leave the den at night and stay in with the pups during the day to let them nurse. The pups will start to venture out of the den in a couple of weeks. They will be weaned in six or eight weeks and be on food brought to them by the parents that they eat and then regurgitate for them. By that time, they will stand close to eight inches at the shoulder and be losing their puppy fur. When they are first born, they will be a deep chocolate brown and when their eyes open, they will be a bright blue. turning light tan in just a few weeks' time before they are weaned. I have often seen where the adults were just eating the soft parts of kills, lungs, liver and on young lambs or fawns just the stomach full of milk to carry back to the pups, starting at around four weeks of age. Some start earlier and some start latter. At this time, it's all about protecting the lives of the pups and stealth is how they do that.