Plot
Suicide Squad leader Amanda Waller begins sending her agents on missions in the apparent pursuit of her own private agenda, the so-called "Janus Directive", bringing the Squad into conflict with other metahuman villains and government agencies. All-out mayhem breaks loose among these groups, involving various metahumans associated with the United States military and civilian agencies.
It is revealed that Waller has not gone rogue - cult leader Kobra tried to murder Waller and replace her with a subservient doppelgänger in order to manipulate and mislead the various government agencies to keep them from stopping his own plan. Kobra plans to activate a massive space-based microwave pulse cannon that would fry all electronic systems (not to mention human nervous systems) in the eastern United States, unleashing the Kali Yuga, the age of chaos he believes it is his destiny to commence. Waller has murdered her double and is playing the role of traitor in order to ferret out the true mastermind behind the Janus Directive. Eventually, the truth is revealed, the groups unite and storm Kobra's space ark, capturing him and destroying his weapon.
The fallout of the Janus Directive results in an irate President Bush reorganizing the various agencies to bring them under executive control; he dissolves Task Force X, the umbrella organization under which both Checkmate and the Squad operated (the component agencies becoming autonomous), and makes Sarge Steel a Cabinet-level official with overall control of all governmental metahuman activity on the civilian side. General Wade Eiling is made his equivalent in the Department of Defense. Waller is put on probation by Bush because of her "lone wolf" tactics, much to her displeasure.
Waller is soon imprisoned for taking matters into her own hands after leading an assassination team to personally liquidate the Vodou-oriented drug ring called the Loa. This leads to the shutdown of all Suicide Squad operations for one year.
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