Prologue: Time's are Changing.
"He's gone?" Was all Otto Octavius, now stolen the identity of Peter Parker said. His greatest victory.
He rose from the chair as he removed the device on his head. A device that was used to eliminate the remains of his greatest enemy. But not only eliminated, but humiliated and "proved" to Peter Parker that he was the better Spider-Man.
"I'm free..." Octavius said as he grinned a somewhat dark smile as he killed Peter both in body and mind. He had done it. Peter has been ripped clean from existence. Otto then rises from the chair and looked at the mirror, admiring his new youth that he'd taken and realized just how it feels to win.
It was then he heard his cellphone ring. He looked down and saw it was Mary Jane Watson , the woman Peter loved and the woman Otto originally lusted over before he felt he needed to keep her "safe". He decided to ignore it, he wanted to gloat more into his victory instead. Moments later the call went straight to voicemail and he heard MJ's voice and said "Hey Peter! I've been calling for a while and I felt that we need to talk. I need to ask if your alright because the Peter I know would never be a recluse and stay away from those who care! So please I need to man up, come see me."
"What did that woman said!" Octavius yelled in rage. Did she insult his pride? Octavius was not one who took insults, in fact he nearly killed two villains who have. Otto then began to ponder and realized Peter still exists as his allies still know him and as such Peter still "stains" his world view.
"No! I can't be superior if Peter still holds me down! If I must make me and this world superior, all aspects of Parker must be erased! With my unbounded genius, I'll erase Peter's worst enemies...and greatest allies! I have such great power and is my responsibility to do justice! Parker was a blight to this world and his presence creates more problems then good! Hell I'm giving his allies a favor, eventually the will die a horrible death and I'm simply giving them a mercy killing. So says The Superior Spider-Man!" Octavius thought to himself as reaches to his computer begins to formulate a plan to create his utopia, a "superior" world.
Meanwhile in a different time...
New York City in the year 2099 A.D. In a future with some the greatest advancements in human history, one man will discover one of the greatest disasters instead.
Alchemax HQ, specifically the speculative science division, head scientist Miguel O'Hara aka the Spider-Man of the year 2099 looks at serveral screens, showing different heroes of the modern times fighting villains and saving lives. This machine was a "time window", it allowed the view to see into various incidents in the past, but it was prototype and can only view the past by at most a full century.
But this didn't matter to Miguel, as he was staring at one screen. It showed Octavius moments after purging Peter from his mind. For months O'Hara has been analyzing Octavius's activities behind his company's back, who didn't notice this change of history, but Miguel was smart enough to see the dangers. Miguel saw that time has been "cracking" by various instances such as the Avengers facing Kang, Scarlet Witch's change on reality with Magneto and changed it back while bringing mutants to near extinction, and how Ultron converted the world to his own totalitarian image. Each change in reality has been damaging the time stream, but it can heal if no more major change to time itself happens.
"Octavius you idiot." O'Hara thought to himself as he looks into the screen showing Otto putting on his Spider-Man costume. The screen then does it's usual time jump of a few weeks, showing Otto fighting The Green Goblin, both surrounded by the bodies of several thugs dressed in goblin masks.
Miguel then backed off the screen as he knew things are going from bad to worst. According to the history books, this incident shouldn't have happened, but the screens don't lie, Octavius is going to do what he promised, destroy Peter's friends and foes. O'Hara went to a wall and pressed a panel and was transported to a darker portion of the Alchemax building, Miguel's Spider-Man "hideout".
"Computer! Analyze the time stream fluctuations!" Miguel ordered as he grabbed several devices, including a watch-like gadget be pressed and created his own Spider-Man costume in a flash of light.
Spider-Man 2099 then goes to his own computer as it says "ANALYSIS COMPLETE. TIME STREAM DATA SHOWS MASSIVE AREAS OF CORRUPTION AFTER PETER PARKER'S BODY WAS TAKEN OVER BY OTTO OCTAVIUS."
"I shocking knew..." Miguel whispered to himself . He has been studying Otto's activities in the past for weeks and didn't understand how what has been written in history and what is happening in the past doesn't correlate.
"Computer, what would happen if Octavius stays in Peter Parker's body?" Spider-Man 2099 asks.
"IF OCTAVIUS REMAINS AS THE PREVIOUS SPIDER-MAN, HE WILL CAUSE THE DEATHS OF VARIOUS INDIVIDUALS IN PETER'S LIFE WHO WEREN'T MEANT TO DIE AT THAT TIME. THIS MASSIVE CHANGE IN THE TIMESTREAM WILL CAUSE A CHAIN REACTION TO WHICH RESULTS I CAN NOT PREDICT..." The computer answered.
"But what the hell does that mean?!" Miguel yelled, angry on the vague answer.
"It means that time cannot be predicted because time is dying..." An ominous female voice is heard.
Miguel quickly turned around and saw a glowing female humanoid figure with long flowing red hair and web-like patterns in her eyes.
"Who the shock are you!?" Spider-Man 2099 demanded as readied for a fight.
The figure simply did a slight cough and said "Forgive me, I am an astral message from Julia Carpenter also know as the second..."
"Madame Web, I've heard of you. But why did you come here?" Miguel asked, still suspicious of seeing a long dead psychic from the past.
"As I said, I'm an astral message sent from the real Julia Carpenter before she was comatose due to having a massive vision from the future." The astral Madame Web explained.
"I see, so what message did Madame Web have to send to the several decades ago and of all beings you could've sent it to, why me?" Miguel continued to question.
"Because, you are the only who can prevent time itself from crumbling onto it self. You see..." The astral being turned to the only window in Spider-Man's hideout, showing New York of the future having very strange storm clouds "...Octavius must be defeated by three other spiders, with you included. Otherwise our world will die."
All of a sudden massive strikes of purple lightning began to strike the city itself, with it creating massive "sinkholes" wherever they hit.
"What the shock is going!" Miguel asks as he sees his precious city falling apart.
"Time is starting to decay. You must go to the past and correct the damage Otto Octavius has created but you must ally yourself with the symbiote and the clone." The astral Madame Web said as she showed images of past heroes Agent Venom and the Scarlet Spider.
"Okay, I got to the past and prevent Otto Octavius from taking Peter Parkers body. Seems easy." Miguel said to himself.
"You can't, the time decay created barriers that prevents certain periods from being reached, and that incident is included." Madame Web told Spider-Man.
"So when can I go? Because it looks those dark clouds are coming here!" Miguel demanded.
"When this astral form was sent, Julia used the massive vision she'd seen to find the right time period to create a counter to the time decay and gave this astral projection the ability to create a small rip in the time period you need to go Miguel O'Hara. But I have one last thing to say, they must be revealed..." The astral Madame Web explained as it changed its humanoid form into a man size portal.
"Hey what do you mean reveal them?! God I hate how all knowing beings give vague demands." Miguel complained as he notices that the Alchemax building was starting to disintegrate. "Ah shock! Computer set my scanners to monitor the time decay!"
"SETTINGS SAVE. DECAY ALREADY AT 25% AND GROWING-" The computer said before it cut off due to the time decay.
"Well I guess there's no turning back. I'm coming for you Octavius..." Miguel growled as he jumped into the portal.
Meanwhile in present time, Otto Octavius, as Spider-Man, had Green Goblin, now called the Goblin King, unmasked as Norman Osborn and held by the throat. Octavius had defeated Goblin Kings underground army and faced Osborn on the roof of the Horizon Lab building and brutal defeated him. At this point many people from the media, law enforcement, and even Octavius's ignorant supporter Mayor J. Jonah Jameson watched the battle.
"Well it seems your games are over Osborn. My victory over your filth is at hand!" Otto proclaimed to his defeated enemy.
Norman simply smiled evilly as he whispered "Maybe. But I did start your downfall Octavius..."
Otto's eyes widened under his mask. He must be hearing things. His only response was "How did you..."
Goblin simply chuckled and wheezed "How did I know you stolen Parker's body, killed him in body and mind, and went on a childish charade to be the one thing you original despised? You should've known your army of spider toys has a lot more personal data than you realize."
Octavius simply tightened his free hand into a sharp fist. He forgot how tenacious Osborn was to Parker, he was the one who original found out Peter's identity before loosing that memory somehow and was the man who murdered Gwen Stacy.
"You think your a genius, but in the end you're like a blank dictionary, you're at a lost for words. You are such an idiot Ock, an inferior Spider-Man!" Norman gleefully said as he began to cackle wildly like the madman he is before suddenly...
Out of rage of being insulted for his arrogance, Octavius plunged his fist into Osborns chest, killing him instantly. The world stood still as they saw Spider-Man kill again, this time fully shown that this wasn't a murder to "save" lives, but in pure, cold blood.
The next night...
In a dark alleyway, all seemed quiet and still despite being in the city that never sleeps. Out of nowhere, a human size portal opened and Miguel O'Hara, Spider-Man 2099, jumped through. He collected himself and checks his surroundings of modern day New York.
"Wow, everything is so...outdated. Now I need to find Octavius before he kills any..." Miguel thought before a gust of wind launches a newspaper in his face. Annoyed, he grabbed the paper and saw it was The Front Line. His eyes widened as the front page said "SPIDER-MAN MURDERS OSBORN! AVENGERS INVESTIGATE "HERO" AS MAYOR DEFENDS SPIDER-MAN."
"You gotta be kidding me..." Spider-Man 2099 complained to himself as he looked at a watch-like device he brought in order to monitor the time decays. His eyes widened as it read "35%" and was slowly, but steadily growing.
Miguel then cursed to himself "Ah shock."
To be continued.