While a gang of jet-pack wearing thieves run by Jackson Weele, an ex-pilot in a rampaging gyro-wheel, plunder the city, Peter tries to deal with his alter-ego giving him competition with Felicia Hardy. Meanwhile, a good kid with a criminal record, Robert Farrell, tries to help his ailing mother by using his science-savvy and the gang's technology to arm himself as the Rocket Racer. While Spider-Man's fighting crime, the mysterious "Jason Phillips" starts to make moves on Felicia.

With Spencer Smythe dead, his son Alistair turns to the Kingpin to help seek his revenge on Spider-Man and others he deems responsible for his father's death. He captures Eddie Brock, J. Jonah Jameson, Norman Osborn, and Flash Thompson. He then turns his sights on Spider-Man and sends three slayers after him. Spider-Man only manages to hold his ground while fighting them individually. However, he is not so lucky when they combine into a super slayer and carry him off to Smythe.

Norman Osborn hires Spencer Smythe to design a machine capable of destroying Spider-Man—the Black Widow Spider Slayer. But when Flash Thompson puts on a Spider-Man costume as a party gag, the deadly machine spots him, and he's carried off in Peter's place.

Robbie has set Peter up with a job interview with a researcher by the name of Dr. Mariah Crawford. However, when he gets to her lab, he finds her under attack by a monstrous man who deems himself Kraven the Hunter. Spider-Man leads Crawford away from Kraven to the roofs. There, Crawford tells Spider-Man that Kraven was not always that way, that in fact she loved him as Sergei Kravenoff. Crawford tells of an accident years back that would have killed Sergei had she not used a dangerous potion that saved his life and gave him the strength and instinct of an animal, but turned him mad. Meanwhile, while looking for Crawford at her apartment, Kraven learns of her connection to Robbie and kidnaps him. He then threatens to kill Robbie if Spider-Man does not come to him with Crawford.

Upon returning to his new apartment, Peter is confronted by the Prowler. Revealing himself to be Hobie Brown, he tells Peter that he knows about Peter's connection to Spiderman, and that somehow the Kingpin is involved in all this.

Dr. Curt Connors is set to study the Tablet of Time, a recently discovered ancient artifact that is said to restore a person's youth. Dr. Connors believes he can cure Spider-Man's mutagenic transformations with the tablet.

With the Tablet of Time, Silvermane's youth is restored, but he continues to grow younger until he finally becomes an infant.

When a savage creature begins attacking people in New York, the Black Cat tries to convince Spider-Man that he needs her help to stop it. All clues point to the creature being Kraven the Hunter, but sleuthing by Debra Whitman, Flash Thompson, and the Black Cat solves the case. The beast, Calypso, is related to Kraven, but the Hunter wants to capture and cure her.

There's a new Vampire in town, but Morbius is getting all the blame. Just as Spider-Man, the Black Cat, Whistler and Morbius have the Vampire Queen trapped, Blade bursts in and prevents her destruction. His revelation sets the others against him, while the queen attempts to create an army of vampires. Meanwhile, Harry Osborn discovers Peter's spare Spider-Man mask.

Mary Jane is being stalked by her former boyfriend, Morris Bench, who's undergone an accidental metamorphosis and become Hydro-Man. Sweeping Mary Jane off her feet in a wave of water, he insists she will love him. Spider-Man, with the help of Mary Jane, must put a stop to the semi-liquid villain.

Deborah Whitman has located Morbius, the Living Vampire, and brings him back to ESU to work on a cure. Just before leaving town, Felicia Hardy hears of this and uses the trip as an excuse to stay behind as the Black Cat. Together with Spider-Man and Whistler, she has to take on Herbert Landon and the Shocker in order to save Morbius from himself.

After a visit from an "old friend" of the family, Peter travels to Russia to investigate the mystery of his parents disappearance, and runs into some old friends.

Still in Russia, Peter discovers that searching for clues to his family's past isn't easy when he has to battle the Insidious Six and the Red Skull.

The Master of Illusion, Mysterio has fooled the city and J. Jonah Jameson into thinking Spider-Man has turned to crime. However, Spider-Man manages to find Mysterio, only to be brought to a trap of special effects.

J. Jonah Jameson hires Dr. Farley Stillwell, a genius in genetic engineering, to make a new superhero that can match and defeat Spider-Man. With a willing participant, Mac Gargain, they engineer the DNA of a scorpion and him together to form a new hero, the Scorpion. However, when Gargain thinks they have turned him into a freak, the hero turns into a monster and goes on a rampage. Spider-Man is forced to step in to stop the creation from killing its creator.

An international spy and hitman known as the Chameleon plans to assassinate two major diplomats on the brink of signing the peace proposal of the century. S.H.I.E.L.D. director Nick Fury solicits J. Jonah Jameson's assistance in an effort to prevent the "human shape-shifter" from derailing the proposal signing. But only Spider-Man with his super keen "spider-sense" can discern who is really whom and stop the criminal before it's too late.

The vampire hunter Blade arrives in New York to destroy Morbius, but Spider-Man wants to revert Morbius back into his human form.

Morbius attempts to use the Neogenic Recombinator to turn everyone else into a vampire. Spider-Man and Blade try to stop him, and Morbius' mutation worsens. Morbius kidnaps Felicia Hardy in order to transform her into a vampire.

Peter discovers that Mary-Jane is working with a mysterious cult. Baron Mordo, head of the cult, wants them to steal the Wand of Watoom to free his master, Dormammu. When Mordo manages to get his hands on the wand, Spider-Man must team up with Doctor Strange and his sidekick Wong to stop them.

Robbie Robertson is losing his son, Randy, to a gang of thugs lead by Tombstone. When this harder-than-stone hitman tries to use his history with Robbie to kill a story about his new boss, Alicia Silvermane, he runs afoul of Spider-Man. Both discover Robbie's bond with his child and his ethical resolve is mightier.

Spider-Man captures a gang of thieves, and it looks like Robbie Robertson is their leader. Peter Parker and J. Jonah Jameson must team up to try to clear Robbie's name. But while Jameson returns to the skills he had as an investigative reporter, Peter must keep him safe from Tombstone.

While settling in to her new role as a hero, the Black Cat is captured by Alistair Smythe, now working for Silvermane, who is trapped in the body of a baby. Smythe delivers Spider-Man an ultimatum: capture the Scorpion or the Vulture within 24 hours, or the Black Cat dies.

Mary Jane is back, and she has got the lead role in a major film. But when filming starts, all hell breaks loose, and Mary Jane vanishes from the studio. Spider-Man must fight to ensure that he doesn't lose Mary Jane again, even if it means teaming up with Mysterio. And when it's all over, Peter has a secret to tell.

Peter and Mary Jane get engaged. The happy couple goes to ask Dr. Connors if he'll give away the bride, not knowing that he's been fighting against the return of the Lizard. While they are talking to him, three more humanoid lizards attack and kidnap Dr. Connors. With the Lizard taking over and Spider-Man captured, Margaret Connors, Mary Jane Watson, and Debra Whitman will have to save the day.

Robbie and Peter encounter an old professor who knows about the Six Forgotten Warriors.