Along the dispute of an election of the president in Smallville High School, candidate Paul Chan is severely injured by a swarm of bees. Pete decides to promote Clark Kent as the substituted for the spot. When the other aspirant schoolmate, Felice Chandler, is also attacked by bees, Clark believes that last competitor, Sasha Woodman, who has the meteor-rock ability to control bees, is behind the attacks. Meanwhile, Lex Luthor is threatened by an opportunist and ambitious reporter from Metropolis, named Carrie Castle, over some dark secrets of his that she’s investigating. Also, The Talon, the thematic coffee shop where Lana works is completely empty, losing clients to the competition and with the threat of closing the doors which makes Clark turn to Lex to ask for help to keep it open for Lana’s sake.

Meteor fragments resurrect a young man with the ability to suck the life out of suffering people. He learns about Whitney’s sick father and targets him for euthanasia.

Martha Kent injures mind-reading Ryan in an auto accident, and he fakes amnesia to get away from his criminal step-parents. His step-parents hatch an elaborate plan to steal him back and use his abilities to rob Lex Luthor.

After stealing an experimental flower laced with meteor-rock pollen from Dr. Steven Hamilton, the employee of the Luthor Corp, James Beales has a truck accident on the road and is rescued by Jonathan Kent. However, the flower releases its pollen on Jonathan’s face, and he unleashes his innermost repressed desires first with Martha and his anger towards the Luthors. He enters in coma later. Then Lana becomes affected and tries to seduce Clark. Pete also becomes affected by the Nicodemus flower in the same way. While Clark helps Lex track down the source, Lex hides from Clark that Dr. Steven Hamilton is working for him, but they find the cure in an old book.

As Lex helps Lana prepare for the re-opening of the Smallville theater, The Talon, as a coffee shop, a man from Lex’s past, named Jude Royce, arrives in town and begins stalking Lex wanting to hold him in conjunction with a shooting death at Club Zero in Metropolis three years ago that Lex may have been responsible for. Meanwhile, Chloe looks into Clark’s past as an adopted child while Martha and Jonathan try to thwart Chloe’s moves.

Depressed from losing his scholarship, Whitney joins a gang of thieves. He gets a kryptonite-laced tattoo and gains the gang’s power of phasing through walls. They rob Luthor mansion and seriously injure Chloe, who is interviewing Lex.

Clark and classmate Eric Summer are both struck by lightning while Eric is holding Kryptonite, and Clark’s powers are transferred to Eric. While Clark experiences normal humanity, the emotionally challenged Eric goes on a rampage.

Bob Rickman is an evil businessman with a supernatural power of persuasion, which he uses to buy the Kent farm despite Jonathan’s repeated refusals. Clark recruits Rickman’s reclusive former business partner to help undo the damage.

Lex and his girlfriend, Victoria, are attacked by an invisible entity. Suspicion falls upon the Palmer family, who are caretakers at Lex’s mansion. Chloe believes that daughter Anna Palmer is responsible because of her jealousy of Victoria.

Corrupt detective Sam Phelan learns about Clark’s abilities, and he offers to keep quiet if Clark steals some internal police files. When Clark refuses, Phelan frames Jonathan for murder to extort Clark into stealing from Luther Corp.