While it can affect all dogs, short-nose breeds like the Pekingese, Maltese, Shih-Tzu, pug and Chihuahua have a greater risk because of their shallow eye sockets. There are good reasons to crate puppies overnight. A dog that is deep in slumber enough to be crying or whimpering in her sleep is very deeply asleep. If your Chihuahua has small dog syndrome, he will try to appear larger than life to let everyone around him know just how fierce he can be. There may be a few basic reasons why your puppy is crying so much, a few of which are enlisted below for your quick reference. The other answers may help if this dog is 'simply' misbehaving: ie, the dog is untrained and underexercised, and needs to be given exercise and taught when to go to sleep. This is behavior based and rooted in lack of training. This means that dogs with short heads and noses are more likely to get it. If your dog cries while sleeping, it is likely during the REM cycle, when your dog is most deeply asleep. According to TheNest, 20 to 25% of all small dogs develop tear stains. During peak brain activity your dog may cry, whimper, or growl in his sleep. Your Chihuahua could be predisposed to it as they are part of the brachycephalic dog group. Which is why interpreting a dog’s cry can be tough. Chihuahua puppies can be adopted out as soon as three months after they are born. One way to know if the entropion your Chihuahua gets is inherited is if it occurs before the Chihuahua has turned one year old. If your puppy is crying in her crate, get closer, but don’t take her out just yet. The most important is safety. She's a two pound, eight week old Chihuahua puppy and this is what I hear every time I lock her up before leaving the house. Puppies can easily get into trouble if your house isn’t puppy-proofed. They cry a little less the next night and the following night. A crate protects household objects from sharp puppy teeth. Let your chihuahua whine it out! I crate them at night to keep them safe and also to keep my sanity if they’re not housebroken, and they all cry at night. Yes, crying comes naturally to newborn pups just like newborn infants, but this can be a matter of concern if the crying is excessive and is practically unstoppable. I’ve fostered many chihuahuas and some of them were puppies. When we’re talking about a whimper or whine, the canine “cry” can mean one of a million things. This is Lucy. Chihuahuas are known to be stubborn, but they want to please their owners and earn rewards. The “cry it out” method can cause permanent neurological and emotional damage for your chihuahua puppy. Spend some time near the crate if your presence quiets her. Dogs are no different. Sometimes they’ll cry for a few hours before they stop. Puppies are unlikely to soil in their crate, and if they wake in the night the crate stops them finding somewhere in the house to toilet. Crating helps with house training too. 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