The two spent all day and night in silence holding each other, as the final minutes of their destiny were coming to an end. He explained that he wanted to take away the love that Peter and Mary Jane shared, as that sort of unconditional love only occurs once a millennium - it would mean he got one over on God and would enjoy listening to the small part of Peter and Mary Jane's souls that did remember the love. A kiss that would prove to be the turning point in their relationship as MJ realized the true depth of her feelings for Peter - feelings so strong that even a girl bearing a close resemblance to Gwen could not stop their romance. Peter begins to explain about his Mary Jane goes to check on Anna Watson, just in time to stop a hitman, who goes after her. MJ is the second of two children with her elder sister Gayle having been born four years earlier. Conflicted over her lingering feelings for Peter, Carlie confides in Mary Jane, and the two begin to bond over their experiences with Peter.Mary Jane remains in the role of best friend and confidant to Peter until he begins to take an interest in her romantically again. Mary Jane recalled a fight with Peter while he was dressed as Spider-Man, where she was so angry that she stated that she did not care where he was and that he had a responsibility to their relationship.

Surviving with minor injuries after a short skirmish, MJ urged Peter to absorb the Venom Symbiote, which would give him the edge to stop his arch-enemy. She confessed to him that no matter how complicated their relationship was, her feelings would always remain the same - she loves him, all the way down to her soul. Mary Jane returned as the girlfriend of Hollywood actor Mary Jane reappeared in New York at Aunt May's wedding to One of these flashbacks revealed that MJ agreed to stay with Peter, but with some conditions - he would never propose her again and they wouldn't have a baby because his life as crime fighter was far too dangerous. Mary Jane Watson : We've all done terrible things to each other, but we have to forgive each other. Following an attack on Puma, she breaks down and admits her knowledge of Peter's secret identity, claiming that she had simply "figured it out". The stress of her captivity drove Mary Jane away. The couple managed to survive the more tragic turn of events and Mary Jane managed to return to college to major in psychology, but the stress of the ongoing manipulations of Norman Osborn took their toll. Because of this, she returns years later to make contact with May. She is asked for an autograph by Sara Ehret, an associate of Jackpot. Mary Jane quit her job out of fear for her own safety and returned to modeling.

After taking a short time to consider, she turns him down. She says that bearing children to someone constantly in danger as Spider-Man it would not be fair to them, and that they must remain unmarried. After her mother Madeline left Philip, the Watson women stayed with various relatives. A few weeks later, Madeline gave up, and discretely slipped out of the house with her two girls, forced to move in with family, again shuffling from one home to another. Peter insists that Doctor Strange should make people forget he is Spider-Man.Shortly after, Carlie Cooper breaks up with Peter, having deduced his secret identity.

In the end the hero promised Mary Jane he will always be near protecting her.

Peter and Mary Jane said "I love you" to each other and kissed, while Mephisto rearranged history. Peter convinced her to stop smoking when he tricked her into visiting Nick Katzenberg suffering heavily from lung cancer (he presumably died) When his parents were discovered to be fakes, Peter was unable to cope with the knowledge and disappeared for a time.