What Lies Beneath

"Lois, would you please just tell me what's bothering you? Is it the Natalie thing? Is it...? No! This is what is bothering me! That you left our 15-year-old son home alone to have sex. You're acting like I did something wrong. And you're acting like this isn't a big deal."

- Clark Kent and Lois Lane

Synopsis
Season two opens with the dust still settling in Smallville following the shocking outcome of the confrontation between Tal-Rho and Superman. Lois and Clark struggle as a couple while Chrissy adjusts to running The Smallville Gazette with Lois. Jonathan faces new challenges on the football field, and secrets threaten to destroy Jordan and Sarah's growing relationship. Meanwhile, Kyle grows concerned over Lana's involvement with a new mayoral candidate. Lastly, John Henry Irons and his daughter Natalie attempt to make this new Earth their home.

Protagonists

 * DOD
 * Superman (Clark Kent)
 * Mitch Anderson
 * Smallville Gazette
 * Lois Lane
 * Chrissy Beppo
 * Henry Johnson (John Henry Irons)
 * Natalie Johnson (Natalie Lane Irons)
 * Smallville High School
 * Jonathan Kent
 * Jordan Kent
 * Sarah Cushing
 * Lana Lang Cushing
 * Kyle Cushing

Antagonists

 * Bizarro
 * Morgan Edge

Other Characters

 * Lois Lane
 * Perry White
 * Smallville
 * Victoria May
 * Sophie Cushing
 * Michael
 * Daniel Hart
 * George Dean
 * Ben Hubbard
 * Jasper Townes
 * Emily Phan
 * Cobb Branden
 * Aidy Manning
 * Smallville High School
 * Gaines
 * Timmy Ryan
 * Malcolm Teague
 * Sean Smith
 * Corey Wellnitz
 * Candice Pergande
 * Regan
 * Annika
 * Annika (UE-43)
 * Sam Lane
 * Captain Luthor's A.I.
 * Lois Lane's Mother
 * Lucy Lane
 * Martha Kent
 * God
 * Jessie Vance

Teams and Organizations

 * Empress
 * Lark's
 * Smallville High School
 * Smallville Crows
 * Daily Planet
 * Smallville Gazette
 * Sequoia
 * Mike & John's Barber Shop
 * Pomono Hotel
 * Victoria May's Diner
 * Parker Bus Lines
 * Spruceburn Camp
 * WOAT or GOAT
 * Twitter
 * Metropolis High School
 * Metropolis High School (UE-44)
 * DOD
 * Defense Threat Reduction Agency
 * U.S. Army
 * Galaxy Holdings
 * Lions
 * Smallville Sheriff's Department
 * Met Museum
 * Smallville Community Bank
 * Powered-Individuals School
 * Supermen
 * Karla's Kloset
 * AmerTek Industries

Events

 * Arrival on UE-43
 * Rescue of the North Korean Submarine
 * Earthquakes in Smallville

Species

 * Humans
 * Kryptonians
 * Humans (UE-44)
 * Kryptonian-Human Hybrids
 * Artificial Intelligences
 * Metahumans
 * Kryptonians (Bizarro World)

Objects and Concepts

 * Clark Kent's Glasses
 * METIT-101378
 * Kent Farm Truck
 * Auto-Drive RV
 * The Little Things
 * The Unearthing
 * Superman Suit
 * Steel War Suit
 * ELTs
 * Supermen Uniforms
 * '78 Firebird
 * Superman Suit

Locations

 * Undesignated Universe
 * Earth
 * North America
 * United States of America
 * Kansas
 * Rice County
 * Smallville
 * Kent Farm
 * Kent House
 * Kent Barn
 * Lark's
 * Smallville High School
 * Main Street
 * Sequoia
 * Mike & John's Barber Shop
 * Pomono Hotel
 * Victoria May's Diner
 * Hofherr Building
 * Smallville Community Bank
 * Karla's Kloset
 * Cushing Residence
 * Atlas Pond
 * Hubbard's Farm
 * Shuster Mines
 * Spruceburn Camp
 * New York
 * Metropolis
 * Metropolis High School
 * Met Museum
 * DOD Headquarters
 * Sancerre
 * North Korea
 * Undesignated Universe
 * Earth
 * Metropolis High School