Issue JLA #115
Subtitle Crisis of Conscience part one
Date August 2005
Writer(s) Geoff Johns, Allan Heinberg
Artist(s) Chris Batista, Mark Farmer
storyline

Flash called a meeting at the Watchtower - Zatanna, Hawkman, Black Canary, Martian Manhunter, Green Lantern (Hal Jordan) and Green Arrow (Oliver Queen) attended. He told them if they wouldn't tell Batman about the mind wipe, he would. Manhunter didn't know what they were talking about - he couldn't read their minds due to magic.
Jordan told him about the Secret Society of Super-Villains learning their identities. Zatanna erased their names from their minds. After Dr. Light raped Sue Dibny, they "got more aggressive." He and Batman had also had memories removed. J'onn went to see Batman, who already knew.
Star Sapphire woke up form a coma after five years.
Red Tornado commed the Watchtower - he was under attack by Floronic Man. Canary, GA, and GL went to his aide. They got to him, but were attacked. Ralph Dibny (Elongated Man) was also being attacked. Hawkman and Flash went to help.
The Secret Society of Super-Villains arrived where J'onn was talking with Catwoman and Batman. They tossed them their friends.


Issue JLA #116
Subtitle Crisis of Conscience part two
Date September 2005
Writer(s) Geoff Johns, Allan Heinberg
Artist(s) Chris Batista, Mark Farmer
storyline The Wizard, Chronos, Star Sapphire, Felix Faust, Floronic Man, and Matter Master attacked. Matter Master threw Hawkman's shield into his shoulder. Green Arrow pulled it out; Chronos set off the time-bomb arrow in his quiver. Faust cut Catwoman's chest. The Society vanished.
Batman took Catwoman to the cave. The rest of the League appeared there soon afterwards. Batman told them to leave and had to be restrained by GL from fighting Hawkman. They went their separate ways to protect their loved ones. Martian Manhunter returned to the Watchtower to find Despero.

Issue JLA #117
Subtitle Crisis of Conscience part three
Date October 2005
Writer(s) Geoff Johns, Allan Heinberg
Artist(s) Chris Batista, Mark Farmer
storyline Despero and Martian Manhunter fought. He let the cat out of the bag that he'd given the Secret Society their memories back. Flash got to Lois Lane at the Daily Planet building before it was bombed. Catwoman watched in horror from the cave while Batman attempted to contact Superman. He got there in time to save his wife from falling to her death.
Together, the JLA took down the Society. Superman knew what had happened to them (and Batman) and pondered leaving the team like Batman did. With the Society down for the count, Hawkman called for a vote.

Issue JLA #118
Subtitle Crisis of Conscience part four
Date early November 2005
Writer(s) Geoff Johns, Allan Heinberg
Artist(s) Chris Batista, Mark Farmer
storyline Aquaman joined the fight between Martian Manhunter and Despero when it came to Earth. He battled him into the ocean to get an edge.
The vote came to 3:3 with only Zatanna left. She refused to mind wipe the villains a second time. She then asked to be taken off the JLA's reserve list. She traveled to Themyscira to speak with Supergirl and Wonder Woman. She was still having trouble with the fact that she'd taken a life.
Back at the Watchtower, the team realized there'd been a battle and J'onn was missing.
Despero brought Manhunter and Aquaman to the Batcave and took over Batman. He now controlled all three.

Issue JLA #119
Subtitle Crisis of Conscience conclusion
Date late November 2005
Writer(s) Geoff Johns, Allan Heinberg
Artist(s) Chris Batista, Mark Farmer
storyline The rest of the team appeared in the cave to battle against Despero. He quickly took control of Black Canary and Green Lantern. He also ripped the wings from Hawkman. Red Tornado, who Batman had been piecing back together, came online and joined the fight. He seemed to be the only one Despero could not control. Zatanna appeared and broke Despero's spell over the League and contained him. The GLs took him to Oa for containment, as the rest of the group discussed the status of the JLA. Only Martian Manhunter, Superman, and John Stewart had yet to quit.
Manhunter stayed to talk to Batman. Batman wondered if he and Catwoman, who'd once been a member of the Secret Society, were a result of the mind wiping.
John Stewart and Martian Manhunter went over some names of who could fill out their new roster. Superman arrived at the tower and the place exploded.


Notes, references to time, and chronology:
This takes up from Identity Crisis and leads into Infinite Crisis. Events from other minis are referenced.