I could be wrong, but isn’t Jefferson also the only one who calls her Regina and not Your Majesty in FTL? It would suggest that he’s more than just someone who works for her.
But if Jefferson is the first born Cora gave up, he’d have to be Henry Senior’s son too if you follow the original story, right? And I don’t really see that being the case when I look at the scene in Wonderland. Unless Jefferson and Regina don’t know that they are brother and sister, then it could work. We don’t know the Once-edition of that story, and maybe it’ll be nothing like the original. Maybe Cora already had Jefferson from a previous relationship and had to give him up to Rumple in order to get out of poverty or something.