This was my first thought. He's likely feeling very strange without his fur right now. Give him a bit and he'll go back to normal. In the future, he needs to be groomed every 6-8 weeks, more if you want to keep him longer coated. There is a lot of misinformation about doodles and their grooming needs running around right now, the biggest ones being that they don't need to be brushed and that they need a haircut only once a year. That's so wrong I can't even begin to tell you about it! Doodles need to be treated exactly like poodles when it comes to grooming, starting at the age of 8 wks. They need brushing at least weekly, more is better. They need a trim at least every 6-8 wks, with a bath at least once a month, if not more. They should never be allowed to get matted, as that can damage the skin and is painful to the dog. I can almost guarantee that your baby was matted, unless you've been meticulously brushing almost daily, which is what would have been needed with the kind of length he would have had.If he went from a whole year's worth of coat to short.. he's probably just feeling VERY strange compared to what he's used to! You have to understand how different he must feel, especially when he was never groomed before. He doesn't have the warmth of the fur he's used to. If he was matted at all, then the pulling on his skin is suddenly gone. He's feeling air on his skin that he probably couldn't before.
Also, are people reacting differently to his new look? That can cause a dog's behavior to change after grooming. And the process may very well have been a little traumatizing, not because of the groomer, but because he went a YEAR before getting introduced to it.
I'd keep an eye on the ears, but wouldn't worry about it if no signs of infection come up.
Getting him groomed more often so that it's not such a big shock to him should help in the future.
Hope your pup feels better soon.