Yes but this wasnīt really Brotherhood Magneto, this was a Magneto that had been spending months tryng to rebuilt Genosha and taking care of itīs survivors, all Wanda knew at the time was that he was killed there and Bendis suggested she brought him back to life, something that was never explained and was dropped as a plot point but She was present during his "funeral" and meet Lorna as her sister this, added to the time they tried to be family in the 80īs itīs enough for me to buy she has complicated feelings over their relationship enough to call for help in a desperate moment.
Magneto took care of her for 6 months aprox. Pietro made sure the Avengers knew where She was and who was taking care of her, Xavier gave her therapy for months and Dr Strange also tried to help so this is hardly a situation in which they just gave up Wanda and forgot all about her like they did with Carol that one time.
I also think that the time Magneto spend taking care of her managed to develop a clossenes they never really had before, because they were no longer Magneto and the Scarlet Witch interacting, but father and daughter and while Wanda was unaware most of the time, the artists gave some clues she appreciated him taking care of her like when she changed the room she was so that it was more similar to her room with the Avengers or her includding him during the fake birth of the twins, remembering he was also there in the original Vision and the Scarlet Witch series.
Bendis suggested Pietro and Wanda wanted to give Magneto back Genosha so it would be interesting if instead of that, the twins really handed themselves and everyone else their ideal life but who knows if they would be living together as family or separated with a home of their own. We are talking here about ideal worlds, not reality. The Avengers and X-men would be really confused on this scenario because they would be living their best lives but would not have a clue whoīs really behind this.
Agreed itīs ironic but I think this story despite itīs flaws helped to turn the interest on Wandaīs story as the protagonist