It is sad to think about Emma being reset to thinking of Neal as just a bad guy when this season did so much to put him in a more positive light in her eyes. He showed his dedication, loyalty, resourcefulness and bravery. He proved tougher and luckier than she ever dreamed with surviving that bullet wound and crossing worlds. He showed more patience and understanding when she confessed her secret unhappiness and fears about trying to integrate him back into her life after thinking she had to move on as he was dead. He demonstrated he can calm her down and admit his faults, and most of all that he can forgive those in general who hurt him (like his father, Hook and Regina and the Lost Boys). He’s not the kind of guy who lets anger and jealousy rule him or drive him to hurt others, but he will stand up to defend his family. He inspires others to help him, as she saw with Wendy and Tink’s reactions to him. He might hide his emotions or downplay them at times but Emma could see through that.
She doesn’t even get time to really think about it or tell him she was going to meet him. That she didn’t show up not because she wants to move on but because she wasn’t sure she could take a day off.
“If I had a world of my own, everything would be nonsense. Nothing would be what it is, because everything would be what it isn't. And contrary wise, what is, it wouldn't be. And what it wouldn't be, it would. You see?” -- Lewis Carroll, Alice's Adventures in Wonderland & Through the Looking-Glass