The story...

The final list of bodies identified from Flight 77 does not include the hijackers names, supporting the view that they were never on the plane.

Our take...

This comes from an article by Thomas R. Olmsted, who wrote:

"A list of names on a piece of paper is not evidence, but an autopsy by a pathologist, is. I undertook by FOIA request, to obtain that autopsy list and you are invited to view it below. Guess what? Still no Arabs on the list. It is my opinion that the monsters who planned this crime made a mistake by not including Arabic names on the original list to make the ruse seem more believable".
http://www.sierratimes.com/03/07/02/article_tro.htm

Sounds convincing, but there’s a problem: the list doesn’t mean what Olmsted seems to imply. The title page clearly says it’s “the final list of bodies that were identified by the Armed Forces Institute of Pathology, at the Pentagon crash site of Flight 77”, and that’s all. So a person not being on the list could mean they weren’t on the plane, but it could also just mean their remains were not recovered, were recovered but not identitied, or they were identified elsewhere: all possibilities that Olmsted ignores.

And that’s quite strange, because Olmsteds own list doesn’t include 2-year-old Dana Falkenberg. Does this “prove” she wasn’t on the plane? No, just that no identifiable remains were recovered. Therefore the list is demonstrably incomplete, even without the hijackers.

What’s more, accounts elsewhere explain that the hijackers bodies were recovered, and provide details on why they weren’t on the list.

"Families of the airplanes' passengers and crews and those who died within the Pentagon provided DNA samples, typically on toothbrushes or hairbrushes, to aid with identification. The remains that didn't match any of the samples were ruled to be the terrorists, said Chris Kelly, spokesman for the Armed Forces Institute of Pathology, which did the DNA work. The nine sets of remains matched the number of hijackers believed to be on the two planes..."
http://www.cbsnews.com/stories/2002/08/17/attack/main519033.shtml

The bodies were identified through DNA samples, and only the passengers relatives came forward to provide them. Obviously, this means the list of people identified by this process will contain the passengers only, no hijackers, and there's nothing mysterious about that at all.