Here is what Claremont intended from an interview he did in 1995.
Chris Claremont: The original Madelyne storyline was that, at its simplest level, she was that one in a million shot that just happened to look like Jean [Grey, a.k.a. the first Phoenix]! And the relationship was summed up by the moment when Scott says: "Are you Jean?" And she punches him! That was in [Uncanny X-Men #] 174. Because her whole desire was to be loved for herself not to be loved as the evocation of her boyfriend's dead sweetheart.
I mean, it's a classical theme. You can go back to a whole host of 30's films, 40's, Hitchcock films -, but it all got invalidated by the resurrection of Jean Grey in X-Factor # 1. The original plotline was that Scott marries Madelyne, they have their child, they go off to Alaska, he goes to work for his grandparents, he retires from the X-Men. He's a reserve member. He's available for emergencies. He comes back on special occasions, for special fights, but he has a life. He has grown up. He has grown out of the monastery; he is in the real world now. He has a child. He has maybe more than one child. It's a metaphor for us all. We all grow up. We all move on.
Scott was going to move on. Jean was dead get on with your life. And it was close to be a happy ending. They lived happily everafter, and it was to create the impression that maybe if you came back in ten years, other X-Men would have grown up and out, too. Would Kitty stay with the team forever? Would Nightcrawler? Would any of them? Because that way we could evolve them into new directions, we could bring in new characters. There would be an ongoing sense of renewal, and growth and change in a positive sense.
Then, unfortunately, Jean was resurrected, Scott dumps his wife and kid and goes back to the old girlfriend. So it not only destroys Scott's character as a hero and as a decent human being it creates an untenable structural situation: what do we do with Madelyne and the kid?
http://www.seriejournalen.dk/sj_indhold.asp?ID=32