The original Ghostbusters decide to retire and turn their ghostbusting business over to their sons. When their fathers are kidnapped by Prime Evil's ghosts, Jake and Eddie must overcome their fears and go ghostbusting sooner than they expected by journeying to the future.

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.

In Camelot the Ghostbusters team-up with Merlin's apprentice Fuddy in order to battle Sir Trance-A-Lot and recover the next piece of the Stone Tablet. Then they must travel back in time to ancient Egypt where Apparitia and Airhead capture Tracy intent on mummifying him.

As Jake and Futura attempt to rescue Tracy. Eddie gets lost and is worshipped by the Egyptians as the ghost of the Great Pharoah. The Ghostbusters must race to get their act together in an effort to locate the next piece of the Stone Tablet.

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.

The Ghostbusters race back in time to rescue Futura from Prime Evil at a Salem witch trial. They must not only stop the villain's latest plan, but they must convince the townsfolk that they are not evil spirits.

Knowing the world would come to a standstill without any oil Prime Evil transforms Airhead into a giant so that he can scare the workers from the oil fields. The Ghostbusters travel to the Middle East to defeat the giant mummy.

The Ghostbusters happily journey to Paris for the unveiling of their statues in Madame Tutu's Wax Museum. During their visit they have to stop the Tooth Scaries from bringing evil statues to life and prevent the Eiffel Tower from being destroyed.

Jake's grandfather is due to be sworn in as a citizen of the United States of America, but during the ceremony everyone is shocked to discover that Prime Evil has stolen the Statue of Liberty. The Ghostbusters must rush to save the day.

Prime Evil's latest plan has his Thunder Ghosts scaring the clouds into making it rain in an attempt to flood the Earth. Jake and Tracy are torn between saving the Earth or saving Eddie who has been captured by Prime Evil.

When Jake and Jessica go on a date Eddie and Tracy go to the rescue of a little girl which turns out to be a trap laid by Prime Evil and find themselves in an old ghost town where they meet a good ghost named Sheriff Stumbleweed and learn that Prime Evil has brought together the most fearsome ghosts from across the universe.

While patrolling the skies the Ghostbusters are taken by surprise and Tracy is kidnapped. Traveling to another planet the Ghostbusters learn that it is the Great Ghost Gorilla who has kidnapped Tracy and is planning to use him as the model for an army of super gorilla robots.

Prime Evil's rival, Big Evil arrives at Hauntquarters and using his Specter Scepter overpowers and imprisons the villain. In order to save the Earth the Ghostbusters find themselves working alongside Prime Evil.

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.

Big Evil returns to Hauntquarters and curses Prime Evil with the Arcane Curse, a spell that can only be broken by performing a geniune heartfelt good deed. A battle between Prime Evil and Big Evil takes place at Ghost Command with no winner in sight for the Ghostbusters.

In the future the evil cyborg Cyman sends a ghostly being into the master computer of the Star Base Crusader in attempt to get revenge on Futura. The Ghostbusters travel to the future, shrink themselves down and enter the master computer, not knowing what lies ahead of them.

When Prime Evil sends Fangster to retrieve the Aztec Medallion, the Headless Horseman of Sleepy Hollow, a former hench-ghost of Prime Evil arrives at the Ghostbusters Ghost Command warning them of the danger. But can they trust him?

After a howling contest takes place at Hauntquarters Prime Evil summons the Wailing Banshee whose voice can cause thunderstorms. The Ghostbusters must go back in time and find a leprechaun to help them defeat the Banshee.

A newly opened ghostly-themed amusement park prompts Prime Evil to send Apparitia and Bratarat to haunt it. When the Ghostbusters realize that the ghosts are loose in the park they fight back, but they must first find Jessica's mischievous nephew Corky.

In an attempt to impress Bratarina, Bratarat capitalizes on Prime Evil's vacation claming that he owns Hauntquarters. The Ghostbusters race to England to stop Bratarat, but not before the villain has already overthrown Buckingham Palace.

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.

The Ghostbusters travel to the future to help Futura save her nephew, Laser and his friends Rae and Tempo who have been captured by Corpulon, a large slug-like energy ghost who seeks vengeance against Futura.

The Ghostbusters travel to Norway to guard peace prize winner Dr. Alex Miller and Jessica from Prime Evil's latest ghostly plan. The gang not only has to protect Dr. Miller from Apparitia and Scared Stiff, but also stop the runaway train they find themselves on.

Prime Evil sends Haunter to steal a recently discovered dinosaur egg, believing that he can raise the creature and conquer the earth. The Ghostbusters journey back to the past with the egg to reunite it with its mother before it hatches.

The Ghostbusters go back in time to ancient Rome to aid Madam Why's great ancestor , Tonya and prevent Prime Evil's ghosts from stealing a magical wreath owned by Julius Ceasar. It is not long before the Ghostbusters are taking part in a deadly chariot race against Marcus Phantamus.