I know very little, well nothing, about Paperport. It sounds like a great program. I am inclined to agree with both Eric and Leslie as they use it.
What I do know is that if you want to do EVERYTHING with pdfs it is almost imperative that you use Adobe Acrobat. Unfortunately, it is a rather bloated expensive program, albeit you get two licenses for the $325 or so it costs. Again, Paperport can probably do a lot for less money and maybe even more.
I think like anything you have to list all of the features you have to have, all the features you would like to have and all those you don't and then compare products as to how they will meet your needs.
Again, I know nothing of Paperport. I do know that using Adobe, by the time I see the document, my staff has opened it, named it, moved the pages in the right orientatation, deleted pages and files they felt comfortable deleting and added sticky notes and stamps to the pages saying things like Records sent on such and such a date.
