You said..."Yes, he has it closed for longer than a few seconds. And he does buldge it out and roll it around. It kinda looks like theres an air bubble in his eye socket"...this bulging is what they do when they are cleaning the eye, but they also do it when something is irritating the eye. Try misting (fine mist) him gently and see if it improves. If he continues to shut the eye for long periods, then I would advise you to take him to a vet. It could be an infection.
You said.."He usually has his mouth open in the basking area yes. The basking area is about 88-95 F. Some times he has it open across the cage. I thought it might be a mouth condition but i didnt see any bubbles, or mucus. His a couple months old"...if he were only keeping it open when in the basking area, I would think it was just because he was too hot there....but (unless your cage is too hot even in the cool areas) if he is doing it in other areas of the cage, it might be a problem. The other times that he is doing it....are they when he has just been drinking?
Thank You