Five years on from the events of the first season, the intergalactic bounty hunter Lobo arrives on Earth and is confronted by Team members Batgirl and Wonder Girl, but his arrival is only the prelude to a greater threat.
Superboy, Miss Martian, and Beast Boy arrive on Rann with Adam Strange to halt the Krolotean invasion at its source. Following a battle, Miss Martian incapacitates a Krolotean and uncovers the truth about what the six Justice League members did during their missing 16 hours.
Members of both the Team and League investigate a Krolotean island, but are discovered and a fight ensues, during which the enemy is revealed to be Aqualad, who left the team in anger following the death of Tula. In addition, Aqualad learned his father is Black Manta. Aqualad eventually escapes, and a bomb planted by the enemy seemingly obliterates the island and most of the Kroloteans present. Meanwhile, the six Leaguers accused of attacking the planet Rimbor (Superman, Wonder Woman, Martian Ma
Nightwing, Wally West, Jim Harper, Green Arrow, and Black Canary reach out to Red Arrow, who has fallen into despair over his failed quest to find the original Roy Harper. Meanwhile, Superboy and Blue Beetle go after Intergang leaders Bruno Mannheim and Whisper A'Daire. The criminals reanimate the Appellaxians into a golem which attacks a nuclear power plant. Meanwhile, Red Arrow returns home where Cheshire is waiting for him. They used to be happily married before his obsession drove them apart
Blue Beetle tries to intercept his friend, Tye, before he boards a bus, but the boy is abducted before Jaime can reach him. Meanwhile, Batgirl, Wonder Girl, Miss Martian and Bumblebee are en route to Bialya. The girls arrive in Bialya and learn that Psimon is active again. They discover a shipment of runaways who are being transported by a plane guarded by Psimon, Icicle Jr., Mammoth, Shimmer, and Devastation. Alpha Team rescue the abducted teens, but Queen Bee is content, since a second shipmen
A stranger appears in Mount Justice claiming to be the future grandson of Barry Allen. The boy, Bart Allen/Impulse, meets with the rest of the Flash family, but is interrupted when Neutron goes on a rampage. The Flash, Kid Flash, and Impulse defeat Neutron, and Impulse secretly administers a cure to remove his powers. Impulse comes from a post-apocalyptic future, and his one-way trip to the past does not seem to have changed it. Meanwhile, Red Arrow and Cheshire travel to a League of Shadows bas
Artemis rejoins the Team while Black Manta sends Aqualad and his men to destroy a communication satellite guarded by the heroes. A fight ensues in which the satellite gets destroyed and Artemis seems to be killed by Aqualad's sword. It later turns out that her "death", as well as Aqualad's defection from the Team, was fabricated to ensure that the pair could go undercover to learn all about the Light and their unknown partner. Artemis is given a mystic amulet made by Zatanna that will disguise h
After recuperating in the hospital, Roy Harper seeks vengeance against Lex Luthor for his kidnapping during a failed stakeout on LexCorp. In exchange for his life, Luthor gives Roy a cybernetic arm to replace the one he lost. Green Arrow and Red Arrow arrive too late to avert the battle, and are informed by Roy that he wants to go by the name Arsenal from now on. Elsewhere, Rocket hosts a bridal shower which is interrupted by Captain Cold.
Aqualad, Artemis, Icicle Jr., and the Terror Twins are sent by Black Manta to capture Blue Beetle, but they are thwarted due to Impulse's interference. However, Kaldur's tracking device (stolen by Impulse during the fight) remotely deactivates all security at the Cave, and Aqualad's team launches another attack.
Nightwing leads the Team on a mission to rescue its members from the Light's partner: an alien race known as the Reach. Aqualad (now officially affiliated with the Light) learns that teenagers have been abducted to test humanity's ability to develop superpowers naturally. Instinctively, Miss Martian destroys Aqualad's mind and learns that he had never been a traitor, but is guilty for being unable to help him.
Despero, on the advice of his robotic majordomo L-Ron, sets his sights on Earth's champions. He attacks the Hall of Justice while the members of the Team who used to live at the Cave are at the Hall to remove their belongings. Mal Duncan becomes the new Guardian to help in the battle.
Bumblebee and the Atom try to remove the Scarab from Jaime's back, but find that its defenses are too strong. Afterward, Robin, Blue Beetle, Impulse, and Arsenal are sent undercover to investigate LexCorp's new partnership with the Reach, crop additives being tested in Smallville. However, Arsenal blows their cover and they end up fighting Black Beetle. They meet Green Beetle and take him back to the Justice League.
Tigress intervenes before Psimon can enter Kaldur's mind and discover their secret; she drugs him, but he discovers her true identity before passing out. She persuades Black Manta that she ought to kidnap Miss Martian to force her to fix the damage she has done, and Manta sends Deathstroke to accompany her. Elsewhere, Jaime convinces Green Beetle to modify his Scarab and is ecstatic when he finds that the Scarab's voice has been silenced.
Four Reach abductees (consisting of Virgil Hawkins, Tye Longshadow, Asami Koizumi, and Eduardo Dorado Jr.) escape from the League's Taos base after being put through endless metagene training exercises. Nightwing sends Blue Beetle to track them down, and Jaime reveals his secret identity to them to get them on his side.
At the Justice League's trial on Rimbor, Vandal Savage manipulates Mongul into taking action against the Reach. The Justice League and Nightwing learn that something is fast approaching the Earth. As Green Beetle informs them that it is the weaponized planet satellite Warworld, the Reach makes contact with Mongul to persuade him to turn around, only for him to state that he is there because of them.
Nightwing arrives on Warworld to inquire about the Team's disappearance, but Blue Beetle covers his tracks by insisting that a Boom Tube opened which sucked in everyone except for himself. Meanwhile, Artemis, M'gann, and Aqualad are stalling for time to try to figure out how to save her life. Cheshire and Sportsmaster try to kill Aqualad and Black Manta to avenge Artemis. M'gann psionically shows them the truth she had unearthed, and they escape.
Black Beetle laments the setbacks that the Reach have suffered, such as the loss of most of their fleet, while on another part of Warworld, Arsenal continues to flee from the Reach's forces. Lex Luthor encourages the runaways to rescue the Team from the Reach and provides them with a Father Box which transports them to Warworld.
With the help of Green Beetle, Black Beetle is able to defeat Mongul and imprison him again. They discover that the Warworld key has been stolen, while in Blüdhaven, the Team returns to base and realizes that they need to turn their attention to saving Blue Beetle.
The Light calls a summit with the Reach to discuss how their plans are advancing. As the tensions between the two groups begin to come to the fore, Ra's al Ghul notices the glamor charm on Tigress's neck and exposes her as Artemis, leading Deathstroke to execute both her and Kaldur. However, a hologram of Aqualad then plays which reveals to the Reach the Light's manipulation, leaving their alliance in pieces. Aqualad and Artemis then return to the team to celebrate.
Superboy and Miss Martian arrive in time to prove the Justice League's innocence before the council of Rimbor. Following Black Beetle's defeat, twenty Reach devices damage the planet's magnetic field, causing various natural disasters. The superheroes destroy them with the help of Luthor, but the surprise of a twenty-first machine in the Arctic leads to the sacrifice of Kid Flash. Bart Allen/Impulse takes on Wally's role as Kid Flash and Artemis becomes Tigress full time. Meanwhile, Vandal Savag