Because of the design of the buildings. Also, the hole in the Pentagon was not small, it was a similar size to the WTC, it just appears smaller.
Unburned fuel will spread over a large area in water, at the pentagon, the fuel burned inside the crash site. There was no water to provide a fuel sheen.
Again, it was contained within the burning crash site.
Because nobody knew exactly what the hell was going on, because this sort of thing had never happened before. Our security was lax during those times. As evidenced by me less than a few weeks before the attacks, who carried through a leatherman tool, and several live cartridges loose in my carry on luggage.
It is not the job of the CIA to provide direct security to POTUS, that falls within the realm of the secret service.
No, but the intercept didnt happen in time, and there was mass confusion to be sure. Certainly you wouldnt agree with every plane who has lost radio contact to be shot down, especially civilian airliners do you?
Neither. The American Government was expoited through its known weaknesses. Those since have probably been corrected when it comes to commercial civilian aviation much to the inconveniance of the average American.
