Yes. Historically speaking, Xavier left Magneto in charge of the New Mutants and the school. Later, the X-Men let the New Mutants and Magneto think they had died fighting the Adversary and went to Australia to hide. During that time, Magneto abandoned the New Mutants and they were essentially left on their own. Cable found them and took them under his wing. It's possible that the New Mutants could have returned to the Institute now that the Professor is back, but some of them may resent the X-Men for what they feel was abandonment. In truth, Storm made the decision to let everyone think they were dead to try and protect the kids from their enemies. It's something that canonically Storm has wondered if she made the right choice to this day, but she never truly regretted it since it worked out for the best. After all, Storm had no idea that Magneto would up and abandon the kids.