Actually, the autopsy report states 'her remaining brain regions also show severe hypoxic injury and neural atrophy/loss'. Note the 'severe'. (pg 35)
It describes here as having 'anoxic ischemic encephalopathy'; encephalopathy causes (depending on severity) a progressive degredation of cognitive and memory skill - tallied with the description of the above, that would suggest to me a severe lack of cognitive ability.
I'd note that the autopsy does state details on PVS diagnosis RE: living patients and correlation with autopsy results in the section above (5) on said page, and also on page 17-18.
I'm not a neurologist, natch, so if anyone here
is, they can peek at that set of pages and translate it. But to me, the implication of Teri Schiavo having uncommunicatable cognition (to coin a term; if attempting rehab, IIRc they would not only test visual stimulus but also that of sound and touch - i.e. anything you could sense) is arguable a red herring - is there
any way that could be diagnosed anyways? And would anyone want to live in that condition? (is it any different from vegetation - or is it worse)
I'd note, though, that having an entire hemisphere removed is different - although there are still side effects due to specialisations in each hemisphere, IIRC the brain is able to recompensate partially because it is healthy (as opposed to Schiavos brain, which was all-round damaged). Brain surgery is a surgical solution for extreme cases of epilepsy; I'd guess this type -
http://psychologytoday.webmd.com/content/article/88/99676.htm - of surgery is what you're referring to. Anyways, it's not a fair comparison, because it's suregery upon a 'healthy' brain (within relative context).
I don't know about the specifics of cerebral atrophy (and not without knowing the details of the cited examples - assuming I could understand them!

), but AFAIK the survivability can depend upon the localisation of the atrophy (i.e. within a specific region rather than whole-brain). I do know that the autopsy sites another case of a vegatative patient with a greater brain mass, so it cuts both ways.
With regards to her husband; the allegations thrown to discredit his case has been as of yet baseless or, when tested in court, thrown out as false. Ultimately you can't hold him as 'guilty' of something unless you have evidence; particularly as this case went through every court in the land, every legal procedure possible, and under intense scrutiny. Had these suspicions been enough to cause a change in the case - principally the claim Teri Schiavo would wish to die if in this state - then they would surely have done so.