To be honest, Amy annoyed me in Season 3 and Season 4 too, just not that much.

She still had some annoying trends in turning every argument she has with Ephram around him and forcing him to apologize to her for things he's clearly not guilty. And her speech in Ghosts was selfish in a level almost like her asking him to not go to New York for the summer program. I get that she wanted to grow and she wanted to do it on her own, but in that case she shouldn't tell him to wait for her. He had waited for her 2 years, he has a right to be happy too.

And that's why I liked Bright when he tried to tell Ephram that he needs to move on and realize that there are other girls besides Amy. I'm glad that Ephram and Amy got back together, but that's because I have a soft spot for Ephram and he loved her and clearly he was the happiest with her, but my dislike for Amy was always present, just toned out a bit in Season 3 and 4. However the first two seasons were enough for me to always remember that she's not my favorite.