Our dog, a lemon?! Certainly not!

Our Malcolm, dear sweet, lovable Malcolm, a lemon?! I spoke with the vet today because dear sweet lovable Malcolm is having some skin fungus issues (bleh!), as well as some other weird stuff. I'm at my wit's end with his skins issues because it's in between the folds of his neck skin and it doesn't get any air! I'm supposed to keep it clean and pray he doesn't scratch at it which makes it worse. At night when he starts to scratch at it, I launch myself out of bed to stop him, and after a few too many launches I just bed down with him on the floor (well, not exactly - I do have a tempurpedic style bed pad on the floor).
Anyway, talked with the vet today and she is baffled by our beautiful baby. He has skull atrophy, and it appears his whole front end is muscularly atrophied. She's really trying to figure out what's going on with his atrophy issues and skin issues (she even said she wondered if he had a brain tumor - yikes!). I don't think she meant it as badly as it sounds, but she said something about us kind of getting a 'lemon', but she said it didn't seem like it mattered because he's such a lovable dog. We think he's a hunka lunka love, but we are finding out that maybe he has some 'disabilities'. It doesn't really matter, it's just important that he found his way into our home and our hearts.