Much of the 9/11 TM is definitely ignorant and lacking in political/activist background. Many of us continue to humbly inform ourselves about the world in as rational a way as possible. But many others oversimplify, jump to conclusions, and are too lazy or unstable to assimilate new information, revise their conclusions, and make reasonable assertions.
Naomi Wolf's article may be taken by some in the 9/11 TM as unfair slander (or naive in its own right), but I think we should recognize the legitimate critiques she's making.
Conspiracy theories definitely are seen as lowbrow and this is a very effective means of isolating them in the most marginal and powerless segments of society. It's too bad that many of these people do not have the educational/informational background to effectively represent their theories or information, which may be totally valid.
It's not a question of whether conspiracy theories are real; they are. But not all of them; the real ones have rational, verifiable evidence to back them up.
The other side is, of course, the frantic anti-conspiracy theorizing that the establishment engages in. These people are at least as irrational as the people who believe in shapeshifting aliens from planet x in 2012, because they refuse to acknowledge hard evidence just because of where it leads or who is promoting it.