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Hi this is Dr. Hill. Please give me a moment to type my full response.
What treatment is he on for the yeast overgrowth? It sounds like Cooper has allergies. They are usually a combination of environmental (inhalant allergens) and food. With the symptoms showing up after you moved to a different part of the country, it sounds like his are more environmental. You can have him tested for environmental allergies through your veterinarian (I like Spectrum Labs for this). I would do a region and food panel, so that you get complete information. You have to be careful with raw diets. If you are set on a raw diet, I would go with a dehydrated raw diet, like Honest Kitchen. It is a safer option. We can see bacterial issues with raw diets which can cause diarrhea. Because his stomach is upset right now he may need to be on something very bland. Please list his current medications and supplements.