I'm sure that the CIA is possessed of some very good people, true Americans, trying to do a good job, however, it has become obvious that its middle mangement at the very least is infested with a political agenda which is anathema to what this president is trying to accomplish.
As Laurie Mylroie explains in her book Bush Against The Beltway, the CIA has been in full CYA mode as relates to uncovering state sponsorship of any terror event. Evidence is piling up that they missed definite ties to state sponsorship of the 1993 WTC bombing (Iraq), and possible ties in the Oklahoma City bombing, the anthrax mailings post 9-11, maybe others.
Under Clinton, their mission seemed to be to make damned sure these things could not be blamed on a foreign political entity, as this would require a forceful response, something which would disrupt Bill's little utopia, and prevent him from blaming it on the 'radical right wing'.