For a story that does character building really well I feel like this missed the mark a little, they show how her fear/anger at Rudy came to be and then had her suddenly change and do a 180 right at the end without Rudy really doing anything and not addressing the underlying problems of her fear and inferiority issues.
The hug was wholesome and nice but I feel like Rudy should have talked to her and explained that he isn't perfect, explain why he had that fight with their father and let her know he is as strong as he is because he was tutored by some of the strongest people in their field rather being hauled around looking for his mother like she was.
She saw in Rudy that same fear and worry she saw in her father and it was literally a tacit recognition that he's just a normal person and can't do literally everything himself, and that he is concerned about her, without him needing to monologue a single line of any of that to her for extra pages. The side by side imagery of Rudy and Paul was the message. She certainly has inferiority issues, but the tension in the moment wasn't related to that. She feared him because her only interactions with him tend to be poor and full of misunderstandings, not because he's better than she is. She needed to see him vulnerable and weak to realize that she was mistaken about his character and intentions.
Remember that Rudy has the social ineptitude of a soiled diaper. He might know how she feels on some level given his history, but being able to convey that in a way to convince her of anything is not his forte. He was worried if he tried he'd be the same as the brother or the friend that tried to bring him out of his seclusion in his old life, and the thought that he would make it worse for her terrified him.
All this to say, this was 100% her problem to fix, not Rudy's, and better for it too. It's her taking the first step to move past her issues, not Rudy being her savior. He just needed to sit there and look pathetic so she could realize she was wrong about him.