Following a tip from Batgirl, the Dynamic Trio meet up at the Grimalkin Novelty Company, hideout of the Joker and Catwoman. There, they overhear the arch-criminals' plot and secretly trail them to a stash of hidden gunpowder. A careless mistake spoils the villains' evil plan, however, and they are captured and brought before the Gotham City judge. But when the jury seems less than interested in justice, courtroom mayhem ensues.
Louie the Lilac is in town, planning to corner the lilac perfume market in Gotham City. His concoction requires the glands of several animals, so he kidnaps Bruce Wayne and Dick Grayson to make the extractions. With "Batman and Robin" unable to respond, Batgirl attempts a rescue, only to be captured herself. The trio rely on their wits (and the latest bat-invention) to attempt an escape.
Nora Clavicle, a women's rights activist, uses her influence to have Commissioner Gordon, Chief O'Hara, and the whole police force fired and replaced with women. She cuts ties with Batman and Robin, then launches her plan to blow up Gotham City with explosive-packed mice and collect on the insurance. The Terrific Trio look for a way to neutralize her mechanical hordes before it's too late.
The Penguin taints the ink at the U.S. Mint with Lygerian Sleeping Sickness. As word of the infected money gets out, citizens of Gotham City empty their cash right onto the streets - and into Penguin's pockets. But when Bruce Wayne spreads word of the infected bills worldwide, the Penguin realizes his ill-gotten gain is worthless and threatens a more devilish plot if the warning is not retracted.
Shame escapes from prison, and together with Calamity Jan, goes to work on his newest caper. He leaves a cryptic clue for Batman, Robin, and Batgirl describing the first part of his scheme - the robbery of two opera singers. The Terrific Trio decipher his riddle and attempt to stop him, but when Shame breaks out his "fear gas," the three are left quaking in their shoes.
After his previous battle with the Terrific Trio, Shame now has Batgirl as a hostage. He agrees to a swap when he realizes that Batman and Robin also have Calamity Jan's mother, Frontier Fanny. Batgirl informs the Dynamic Duo of a plan for a "great train robbery" that she overheard as a hostage. The three work to figure out Shame's plan and race to stop him. But when they realize they are too late, Batman attempts to lure him out of hiding with an offer of man-to-man combat.
With plans to build an indestructible empire, King Tut goes in search of Nilanium, the world's strongest metal. But with the only known deposit lying directly beneath Wayne Manor, Tut's tunneling soon leads him to the discovery of a lifetime - the Batcave itself. With their secret identities in jeopardy, Batman and Robin race to stop him before his find is leaked to the world.
The Joker is back in Gotham City, this time with his sights set on worldwide domination. He plants rumors of an invasion from outer space, then sets out to gather the Beryllium metal needed to build an actual flying saucer. Batman picks up on his scheme and sends Alfred to check up on a stash of the metal. But when Alfred is mistaken for a mad scientist by the Joker, he is hauled off to the villain's lair along with Batgirl. The Dynamic Duo are on their way when a bomb planted by one of the Joker's henchmen goes off, leaving them unconscious, and their Batcave cut off...
Dr. Cassandra and her husband Cabala are behind a string of invisible robberies, thanks to their camouflage pills. When Batman, Robin, and Batgirl attempt to stop their next theft, the crooks turn them into 2-dimensional figures with their ray gun. Dr. Cassandra then begins work on her final plan - releasing all the super criminals from prison to join her invisible force.
Minerva has been using her "Deepest Secret Extractor," disguised as a piece of equipment at her mineral spa, to discover where her wealthiest customers hide their valuables. With this info in hand, Minerva has been able to pull off a string of robberies with ease. When Batman and Robin's investigation is cut short by the villainess, butler Alfred goes undercover to help foil her criminal operations.