If you'd like to provide specific examples of the President or DoD not following the proper DoD protocol, then please proceed.
I don't think it is a case of providing an example of when protocols were not followed, in the military they are referred to as standard ooperating procedures. This is a case where it is necessary to show that SOP was followed and that SOP was adequate. Sort of a glorified after action report to review performance.
What alerts were put out when the facility was attacked? What are the SOPs for military bases, and other U.S. facilities, in the region when alerts are received? The military takes responding to alerts with extreme seriousness, so everyone up the chain of command knows which units were ready to perform any assigned missions. And the military has plans to respond to just about any contingency the operations officers can imagine, it's what they get paid to do.