I have to wonder what your definition of crate training is. Did you just put him in the crate and shut the door? WRONG! WRONG! WRONG! The dog should learn that the crate is a fun, rewarding place to go. He should be given a food treat to go near it. Then the treats are closer to the crate. All the while making this a fun game. Eventually the treat is in the crate and the stay command is reinforced.
I agree with Dr. Doug it is time to use medications to slow unwanted anxieties while training to stay home.
The idea of alpha dogs and pack animal behavior, with all due respect to GO Dogs, is based on wolf behavior observed while in captivity, and wolf behavior in the wild is much different. This mindset also assumes that dogs and wolves are basically the same. However, new studies have shown that dogs behave differently than wolves, as they are considerably removed from them, and dog training is more about communication.