- It's been four weeks since the Fortress collapsed and Clark disappeared. Green Arrow calls upon Black Canary and Aquaman to locate the missing Clark Kent. Clark, in the meantime, is powerless and residing in a Russian prison camp in Siberia. With Lex Luthor missing and presumed dead, a new ruthless CEO, named Tess Mercer, is appointed the head of LuthorCorp and moves into Lex's mansion with her own dark plans for Clark and Metropolis. Chloe is kidnapped by a clandestine group that has discovered her special powers and they want to test the limits of those new powers by locating Green Arrow and his friends.—Anonymous
- Four weeks later, in the Arctic tundra, LuthorCorp's special teams headed by Regan Matthews search for signs of their missing CEO, Lex Luthor, . A helicopter lands and a woman in black snow boots named Tess Mercer gets out, demanding answers. She is a trusted employee of Lex's, who he has left in charge in the event of his absence. Suddenly, one of the scientists finds some human remains in the snow. Little do they know that they are being ambushed by the Justice League - Green Arrow, Black Canary, and Aquaman. After a brief battle, the League finds Clark's jacket and decide to leave and head back to base.
Back at Lex's mansion, Lois Lane, disguised as a maid, is searching for clues on her cousin Chloe Sullivan's whereabouts. Suddenly, she is interrupted by Tess, who tells her that she has known about her for a while and that if Lex had Chloe arrested, then Chloe must have been guilty. She then has Lois escorted out of the mansion by security.
Meanwhile, in Black Creek, Montana, Chloe is being subjected to tests by a guy with glasses named Ray. It seems that the government wants to use Chloe's talents in exchange for giving her a lighter sentence for hacking into the NSA. Ray says that Chloe is smarter than the average human, to which Chloe responds that the change happened recently, revealing that she has another power: super intelligence. The Justice League regroups at the Isis Foundation, searching Chloe's computer for information on Clark's whereabouts. It is then revealed that Clark is in Verkhoyansk, Russia, powerless and working in a slave labor camp. He tries to escape by truck, but someone shoots at him and he crashes. The owner beats him up and threatens him with death if he tries to escape again.
LuthorCorp finds an encoded signal from the Justice League satellite and plans to use it to track them down. Once they can decipher three cell phone numbers (using Chloe's powers), they can take them down systematically. Ray asks Chloe to decipher the phone numbers. She believes it is another test until she deciphers the third and realizes it is Oliver's. Aquaman is felled while taking a shower in Tromso, Norway. Black Canary is then taken down on a fire escape in Qeqertarsuaq, Greenland. They succeed in capturing all but Green Arrow. Chloe then realizes that Ray is not from the government, but instead hired by LuthorCorp, and that he has been tricking her into helping him kidnap the Justice League. Chloe tries to escape, but gets captured again.
Back in Russia, Clark is saved by Oliver, who has tracked him down. Calling himself Roy Connor, Oliver pretends that he wants to buy black-market caviar. Oliver pretends not to know Clark and they start to fight. Oliver then "buys" Clark from the Russians and they leave in Oliver's private jet. Clark tells Oliver that the Fortress of Solitude collapsed on him and Lex. He laments that he should have listened to Jor-El because Lex now knows his secret. Oliver doesn't think Lex survived the Fortress collapse, but Clark points out that he did. Clark admits that he has made a huge mistake and that he feels responsible for what happened to Chloe, and that he will help Oliver find Chloe. Oliver says that Chloe is likely being held in Montana, but Clark is useless without his powers. However, Clark insists they go rescue Chloe anyway.
Back in Black Creek, Ray tries to get Chloe to tell him the last phone number, but she refuses. He has Arthur Curry (Aquaman) and Dinah Lance (Black Canary) strung up from the ceiling. Regan then injects Chloe with a serum they extracted from her mother's DNA, explaining that it has the ability to make a person temporarily follow any order. Her eyes glow green. He then commands her to tell him the last phone number. She obeys and they are shocked to discover they trace the phone number to the base.
Clark and Oliver have arrived. Oliver is in his Green Arrow gear, and Clark is unarmed, but he insists they split up. Clark is shocked to discover Lois also at the facility, where she is undercover as a guard. Lois goes off with Clark and he explains that he is trying to find Chloe. They team up and search for Chloe together. After Oliver gets captured by security guards, Regan injects Oliver with the serum and commands him to find out what happened to Lex Luthor at all costs.
Clark and Lois find Chloe, but Lois gets tasered by a guard. Clark knocks out the guard, frees Chloe, and they embrace. Clark explains that Jor-El took his powers. When Clark runs downstairs to find Oliver, Oliver is waiting for him there and shoots an arrow, which passes straight through Clark, seriously wounding him. Under mind control, he demands that Clark tell him where Lex is, then shoots him again straight through his chest. Chloe runs down the stairs to find a dying Clark. She tries to heal him, but it doesn't work. Oliver snaps out of it and Clark begins to die in Chloe's arms. As he lies dying, he begins having flashbacks of Lana, Martha and Jonathan, people who have left him in the past. The Martian Manhunter suddenly appears in Clark's dream, bathed in yellow light. Just as he actually materializes in front of Clark, Chloe, and Ollie, Clark dies. The Martian Manhunter picks up Clark's body and flies him off into space and into the direct heat of the Sun.
Later at the Kent barn, Clark wakes up to find himself perfectly healed. The Martian Manhunter tells him that the sun healed him, but also says it stripped him (Martian Manhunter) of his powers, as fire is his weakness. He says that that was the last time he could save Clark and that with the Fortress gone, he doesn't have Jor-El's guidance to help him. Clark responds, saying it is time he stopped holding onto a life on the farm that was gone a long time ago, and begin to accept his destiny.
At the Luthor Mansion, Tess' assistant brings her a briefcase containing something they found amongst the remains of the Fortress and a photo of a footprint, but it's not Lex's. She opens it and finds the Crystal of Knowledge glowing brightly.
Chloe is speed-reading the archives of the online version of the Daily Planet. She wonders aloud what has happened to her to give her this ability. She hears a noise and exits the apartment. It is Jimmy Olsen, who is glad to see that she is all right. Chloe wants to bring up his proposal, but Jimmy avoids the subject, saying it might risk what they have between them. But Chloe disagrees. She tells him that she spent a lot of time in prison thinking about what she had, and that she was holding onto things from the past that she has decided to let go of. She tells him that she will marry him. She kisses him and hugs him.
Clark is walking on the streets of Metropolis when he meets up with Oliver, Dinah, and A.C. again. They tell them that the League needs to disband because their identities have been compromised. Clark tells them that he wants to help. The League surmises that finding Lex is its top priority and they part ways. Later, at the Daily Planet, Lois is surprised to notice that Clark has appeared in the chair in front of her. He tells her that he took her advice and filled out the application, and is now the Daily Planet's newest reporter, with the desk opposite hers. Lois looks a bit miffed, but after Clark leaves, she gives a faint smile.
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