Could lactose intolerance cause bloating and cramping when you wake up? and hours after eating dairy? no diarrhea, but using bathroom more frequently

Sure, but...: There are lots of reasons (some quite concerning) for abdominal discomfort /bloating, but not all of them are due to the GI tract. Also, functional syndromes may be present without underlying inflammation or structural pathology to account for associated altered stools. Check with your doctor for examination & treatment options, particularly if persistent after trying lactase supplements.