Cooper and others probably don't and won't have sufficient info to determine who was actually behind all of this, but the amount of intel and info and data which Cooper derived his theories from probably made him less targetable because of his publicity.
If the Intel community at the national level fails to investigate this incident with excruciating detail, then future intel sources will dry up. During a War on Terror, this means domestic enemies of the Constitution won't be reported upon as much, because nobady wants to be labeled a 'nut'. Whoever orchestrated this incident is NO friend of the Constitution.