Hello, I'm so sorry you and your son are going through this - it's so difficult to leave your little one with other people and hard to know what's really going on. I would suggest to find a place where you and your son feel comfortable. If your gut is telling you something just isn't right, then I would look into another center, in-home daycare or someone who could come to your house.
My two children are in a daycare center. The director runs an extremely tight ship and we feel very at ease with our kids going there. My son is 2-1/2 and took a 3 hour nap there today! But a center may not be the right fit. Some of my friends also do in-home daycares. I think it really depends on who the teachers are, the structure, and if you and your son trust them.
Are you able to pop in there unannounced to see what's happening or arrive early to pick him up? That might give you a better sense for how he's doing. Our center has video cameras so sometimes I will "spy" on my kids/teachers to see what's going on and how they are doing.
All the best to you - it's obvious you have your son's best interest at heart and you will do what's best for him and you.
take care!
A.