Or perhaps, now knowing that he is Gold’s son, she feels she need to protect Henry from Gold and his family and does not tell him.
I’m not sure she could keep it from Neal. I mean it’s not like she can tell the whole town not to mention the fact that she has a kid and there’s no way she could try and convince him that Henry’s not his. The timeline would be too exact for Neal not to notice it and she couldn’t exactally say that Henry was the product of a rebound relationship–you don’t get many of those in jail.
But I think if she told him that she wanted Gold as far from Henry as possible, I think Neal would go along with it. He would know, but not say anything about it for a while so Gold doesn’t get any ideas.
What a depressing picture. Neal back in Storybrooke and hanging out with Henry, but not telling him…. 😥