Puppy Crate Training
From your brief description, it sounds like it could be anxiety over being left alone or anxiety about being confined. If he does well in his crate when you are home (not sleeping, but actually moving around), it's probably anxiety over being left alone. I'd suggest leaving him with one or two stuffed Kongs, exercising him well before you leave, and try to leave him in a larger space than his crate (but one that doesn't have stuff for him to destroy). Additionally, you may want to try some of the holistic anti-anxiety remedies like flower essences and DAP plug-ins. You could also try doggie daycare so he isn't left alone and he's burning off energy. Even a couple days a week could help.