Brainiac (story Arc) - Plot

Plot

In flashback, Brainiac steals the city of Kandor. In the present, the Daily Planet is having a staff meeting attended by Perry White, Lois Lane, Clark Kent, Jimmy Olsen, and Ron Troupe. Also present are Cat Grant and Steve Lombard, who have recently returned to the staff. Clark hears a mysterious noise with his super hearing and goes to investigate as Superman.

He discovers the noise was a Brainiac drone, sent to try to locate Superman. Superman promptly defeats the drone and takes it back to the Fortress of Solitude. With help from Supergirl it is revealed that Superman has never fought Brainiac before, and all earlier encounters Superman has ever had with Brainiac has been with one of his probes. It is also revealed that Supergirl was on Krypton when Brainiac stole Kandor, and because of this is terrified of Brainiac.

After visiting the Kents, Superman then goes flying all through the galaxy in an attempt to track down Brainiac. He discovers his probes on one planet, and witnesses Brainiac capture a city like he did with Kandor. Brainiac also fires a missile into that planet's sun, causing the sun to explode and destroy the planet.

The explosion knocks Superman unconscious and he is brought upon Brainiac’s ship. When Superman awakes he escapes and makes his way around Brainiac's ship. There he discovers a room full of thousands of bottled cities, including Kandor. At this point the true Brainiac reveals himself. It is revealed that Brainiac has been collecting information of all the planets he has been destroying and the next planet he decides to attack is Earth, including capturing Superman and Supergirl as the last remnants of Krypton.

The Brainiac ship arrives over Metropolis and sends out probes to attack Metropolis, while everyone, including Supergirl, does their best to fend them off. Meanwhile Superman fights with Brainiac. After knocking him out, Superman hears a voice that sounds distinctly like his father, it is actually the voice of his uncle Zor-El, who is alive inside the bottled city of Kandor (along with his wife Alura). As Superman and Zor-El talk, Brainiac attacks Superman from behind. Supergirl is also caught at this point and brought upon Brainiac’s ship just as Metropolis is encased in a bottle and a solar-aggressor missile is fired towards the sun.

Superman is unconscious and held captive by the ship, being hooked up to all the bottled cities, hearing their cry for help. Superman escapes and attacks Brainiac, before taking the bottled Metropolis and Kandor, he then frees Supergirl and convinces her to stop the solar-aggressor from hitting the sun, which would cause it to go supernova and ultimately destroy Earth. Superman then attacks Brainiac and knocks him out of the ship, forcing Brainiac to land on Earth. Brainiac is overwhelmed by Earth bacteria and micro-organisms. As a result he can not control anything on Earth and is promptly defeated by Superman. However, Brainiac reveals that the cities can not be sustained outside of the ship, and Superman flies off and returns Metropolis before flying to the Arctic and releasing Kandor to its normal size.

Supergirl intercepts the solar-aggressor, preventing the sun from being destroyed. However Brainiac has one final trick left. After reading Superman’s mind while he was kidnapped, he knows where Superman’s parents live, and he promptly fires a missile which explodes on the Kent farm. Although no one is hurt by the explosion itself, Jonathan Kent suffers a heart attack and dies in Martha's arms, just as Clark arrives.

The epilogue begins with Jonathan Kent's funeral. Clark looks over and sees Bruce Wayne and Alfred are standing under a tree nearby.