Both Spider-Men have a new exclusive ability: the original Spider-Man (Peter Parker) has a "hyper-sense" mode, allowing him to move quickly, pulverize enemies one at a time or run through elaborate laser defence systems without getting hurt; Spider-Man 2099 (Miguel O'Hara), meanwhile, can create a fake simulation of himself to divert an enemy, to either attack without them noticing or to move to another area unharmed while their attack destroys something in front of him, such as a highly secure lock.

[8] In the year 2099, Miguel O'Hara / Spider-Man 2099 (Christopher Daniel Barnes) investigates Alchemax scientist Walker Sloan (Val Kilmer), discovering that the latter plans to travel back in time to establish Alchemax years before its original founding, which would allow him to rebuild the company in his image and dismantle its corporate rivals before they are even established.

O'Hara fails to stop Sloan from entering his time gateway and is temporarily trapped between dimensions, where he witnesses visions of his predecessor, Peter Parker / Spider-Man (Josh Keaton), being killed by an unknown assailant.

Arriving at the 66th floor, Parker finds himself confronted by Anti-Venom, Sloan, and Alchemax's head scientist, Dr. Otto Octavius (Dave B. Mitchell).

While attempting to repair the gateway, O'Hara saves Mary Jane Watson (Laura Vandervoort) from a near-death situation and Parker fights 2099 clones of Black Cat (Katee Sackhoff), all the while both Spider-Men find themselves attacked by inter-dimensional tentacles.

Analyzing the samples, O'Hara discovers Atrocity to be a combination of Sloan, Anti-Venom, and Octavius and theorizes that forcing it back into the gateway should disrupt the time storm.

However, the CEO contacts O'Hara and reveals his intent to harness the storm's quantum energy so he can rewrite history in his image.

McKinley Noble of GamePro highly criticized the game, pointing out that it ultimately doesn't live up to Shattered Dimensions, only giving Edge of Time a "fair" rating of 3 out of 5.

GameSpot gave the game a 6 out of 10, saying that it "tells an enjoyably absurd time-hopping tale, but stepping into the tights of its two heroes doesn't feel as empowering as it should".