Arriving in the future the Ghostbusters bust their first ghosts and meet Futura, the bewitching Ghostbuster of the future. They learn of an ancient Stone Tablet which has clues to their fathers' whereabouts leading them back in time to Camelot.

Avoiding danger in prehistoric times and escaping the Ghost of the Missing Link, the Ghostbusters and Futura are overpowered and imprisoned in Prime Evil's Hauntquaters. The Ghostbusters must locate their fathers and defeat all of the ghosts before being turned into ghosts themselves.

Prime Evil creates a dragon to melt the polar ice caps and flood the Earth. When the Ghostbusters discover their Ghost Command underwater they race to the North Pole where they find that fighting a fire-breathing dragon is not an easy bust.

When the other-dimensional Invertroids begin capturing people through mirrors the Ghostbusters join forces with Jessica's uncle John Guardian in order to defeat them. But for the Ghostbusters to prevail a great sacrifice has to be made.

When a young boy named Copernicus Randall sees Fangster in the moon through his new telescope. The Ghostbusters must find out why Prime Evil is trying to prevent the young boy from looking into the stars. They discover the truth in the future.

The Ghostbusters are puzzled when their ghostly devices in Ghost Command begin acting crazy. A strange green vapor appears to be the cause of the odd behavior. When the Ghostbusters travel into the sewer to discover the source they also they find out the vapor is coming from a toxic waste factory.

Prime Evil steals the futuristic Megalaser device and hides it in the center of the earth prompting the Ghostbusters to retrieve it. However, when they arrive they discover that Prime Evil's Golem warriors have overthrown the peaceful inhabitants who dwell in the depths below.

In his latest plan to rule the world Prime Evil decides to amplify Belfry's sonic blast. However things do not go according to plan when his sister Prime Ordeal and her bratty child Snookums arrive. As the Ghostbusters fight to save Belfry, Prime Evil is occupied with many other problems!

In an effort to increase his power Prime Evil sends Haunter and Scared Stiff to kidnap Merlin, only to have them return with Fuddy instead! The Ghostbusters learn of Fuddy's capture and race to his rescue as he is subjected to the jokes of a giant rat with no sense of humor!

In Spain an unscrupulous mine owner plans to evict a farmer and his family from their property by using force. The Ghostbusters must help, but when the ghost of Don Quixote appears they question whether or not they can trust the aid of a ghost.

The evil ghost Harpoon and his hip full of pirates kidnap the ghost of Moby Dick and they ghost of Captain Ahab. With Moby Dick in his power, Harpoon plans to capture space liners and continue plundering. The Ghostbusters learning of this race to rescue Moby Dick and Captain Ahab.

The Batz; Beauregard, Rafter and Eaves, are horrified when their close friend Madam Why is kidnapped by the evil Wormwood. The villain plans to drain all of Madam Why's powers and add them to his own. The Ghostbusters must team-up with the Batz and overcome the many obstacles Wormwood throws in their direction.

Corky's friend Gene, a young computer genius, is kidnapped by Prime Evil. The villain plans to use the boy to help take over the computers that control nuclear missiles and rule the world. Prime Evil's cousin the King of Terror uses his ghostly powers to scare Corky into not telling anyone about the incident.

When the mysterious Vodun appears Prime Evil sends Scared Stiff and Haunter to capture the large creature. In an unexpected set of circumstances Eddie finds himself chained to Vodun with their enforced adventure giving both the monster and human a new perception of the other.

When Prime Evil sees a comet passing through space he sends Captain Long John Scarechrome and his band of pirate warriors to capture the comet and direct it towards Earth. The Ghostbusters have no idea what Prime Evil's plan is until the comet strikes the earth and the largest volcano ever seen appears.