The League of Extraordinary Gentlemen, Volume One

In 1898, one year after her encounter with Dracula, Mina Murray has divorced her husband and now works for the British government. She meets with MI5 agent Campion Bond (the grandfather of James Bond), who gives her the task of gathering selected members for the League of Extraordinary Gentlemen, a secret task force whose job it will be to protect the British Empire from potential threats. Captain Nemo escorts Mina to Egypt, where she finds a heavily intoxicated Allan Quatermain in an opium den. Two Arab men enter the den and attempt to rape Mina, but Allan intervenes and kills one of them. As the other man rushes off to tell the authorities, Mina drags Allan through the busy streets towards the docks, where Nemo's submarine, the Nautilus, emerges from the sea. Nemo fends off the Egyptian police with a harpoon gun, and Allan is brought on board the Nautilus to recover from his opium addiction.

For their next assignment, the League travel to Paris and meet with C. Auguste Dupin to investigate a recent string of violent murders. Mina poses as a prostitute to lure the killer into a trap, but is kidnapped. Allan and Dupin trace the killer to his apartment and find Mina, but are attacked by a large monster.

After a brief fight, Allan forces the monster out of the apartment window, and the fall renders it unconscious. Once on the Nautilus, the monster transforms into a frail, terrified man with no memory of recent events. The man is Dr Henry Jekyll, while the monster is his alter ego Mr Hyde. Mina bids farewell to Dupin, and the Nautilus leaves Paris. When the League return to London, Bond sets them their next task: going undercover at a girls' school to investigate three separate cases of sexless conception.

Mina, Allan and Nemo visit the school undercover and meet the dominatrix headmistress, Rosa Coote. The girls believe they have been impregnated by the Holy Spirit, and the league stay the night for their investigation. Late at night, Mina catches an unseen force attacking one of the girls and throws a tin of paint over it, making the entity partly visible. The League successfully apprehend the "Holy Spirit", which is actually Hawley Griffin, the Invisible Man, and take him to their new headquarters within the secret annexe of the British Museum. Bond promises Griffin that if he agrees to work for them, he will be granted a pardon for his past crimes and MI5 will research a cure for Griffin's invisibility.

With the League fully assembled, Bond gives them the task of recovering a stolen supply of Cavorite from a crime lord referred to as "The Doctor" (an alias for Fu Manchu, which name the comic was not allowed to use, for trademark reasons). He explains that Britain was secretly planning a moon landing to coincide with the turn of the 20th century celebrations, supervised by Professor Selwyn Cavor and using Cavorite to power and levitate heavier-than-air machines.

The League are dispatched to London's Limehouse district in order to learn more about The Doctor. Mina and Griffin question Quong Lee (a storyteller from books by Thomas Burke), who reveals that The Doctor is indeed operating within the area, but only gives them information in the form of a cryptic riddle: "The waters lap beneath the heavenly bridge. The dragon sleeps below it. My advice to you: do not awaken it." Although Griffin is sceptical, Mina concludes that The Doctor's activities must be taking place beneath Rotherhithe Bridge.

Meanwhile, Allan and Dr Jekyll enter The Doctor's lair, where they spy on him carving Chinese symbols into a man's flesh with acid. The league re-group on the Nautilus and organise their evidence. Mina believes The Doctor has stolen the Cavorite for some nefarious purpose, and suspects that he is building an aerial war machine in the unfinished Rotherhithe Tunnel. She and Allan return to the Limehouse district to investigate activity around the abandoned Rotherhithe Tunnel, and eventually find a large cavern where The Doctor's airship (the "dragon" from Quong Lee's riddle) is being constructed.

Allan and Mina infiltrate The Doctor's lair, but are caught by a guard. An unnoticed Griffin kills the guard and Allan disguises himself in his uniform, planning to get inside the airship and steal back the Cavorite. Griffin meets with Jekyll and tells him to create a distraction. Jekyll turns into Mr Hyde and starts slaughtering the guards, while Allan and Mina sneak into the ship, locate the Cavorite engine and steal it. They reunite with Hyde and Griffin in an underwater glass tunnel, but are cornered by more guards. To escape, Allan shoots a hole in the glass and Mina activates the Cavorite, propelling them upwards through the cascading water. The Doctor's lair is flooded, the ship is destroyed, and the Nautilus rescues the league as they fall back down into the Thames.

Bond congratulates the league on their success, and leaves the Nautilus with the Cavorite, telling them he will take it back to his superior M. A suspicious Griffin follows Bond back to the Military Intelligence Headquarters, and discovers that M is in fact criminal mastermind Professor James Moriarty.

A flashback shows the climax of Arthur Conan Doyle's short story "The Final Problem", in which Sherlock Holmes and Professor Moriarty have their final confrontation atop the Reichenbach Falls in Switzerland. However, Moriarty survives his fall into the water below (though his spine and right arm are broken and heal in a deformed state), and is rescued by Campion Bond and Colonel Sebastian Moran. His criminal empire is in fact a front created by British Intelligence, which Moriarty now controls along with London's West end criminal underworld, while The Doctor controls the East.

Moriarty has built his own aerial warship, which he can now power with the Cavorite. Griffin returns to the Nautilus and informs the league of what he's discovered, and that Moriarty plans to bomb London's East end and destroy what remains of The Doctor's criminal empire.

Moriarty launches his airship and starts to bomb the East end of London. While the Doctor sends armed boarders to the airship on gliders, the League boards the Victoria, a hot-air balloon Nemo had stored on the Nautilus, and anchor it to the airship. While Mr Hyde and Nemo attack the crew, Mina and Allan ascend to the top deck where Moriarty is waiting for them. Allan guns down the guards, but Moriarty shoots him in the shoulder and prepares to kill him. Mina smashes the Cavorite engine's container with a monkey wrench, and Moriarty rushes toward the device, grabs onto it, and is propelled into the night sky. The League leave the airship in the Victoria, and are once again rescued by the Nautilus, this time manned by Nemo's first mate Ishmael (the narrator from Moby-Dick).

The story ends with Mycroft Holmes (the brother of Sherlock Holmes) becoming the new director of British Intelligence, congratulating the League for their work, and telling them to remain in London should there be further need for them in the future. Meanwhile, Martian ships fall from the sky and descend on Woking, setting in motion the second volume.