Then again, Equilibrium has some very good points.  Yes, what he did was wrong, but War-Pulse's mysterious motives are a threat, not to mention dropping a helicopter on him did not stop him.  Also the Shroud's actions have yet to be deciphered, and they are very clearly a danger that could be solved with Equilibrium's help.

His crimes, while upsetting, were for a cause.  I'd say his actions were the actions of a inexperienced vigilante, not a cold-blooded killer.  If this was a court case, second-degree murder would be the farthest it would go.