Kofax is not very useful or user-friendly (per my counterparts working with the County). It's adequate, but not good.
We use an all Adobe solution. Details to follow (I'm not in charge of running that area, so I have to gather some information for you).
Update: We use
Adobe Acrobat Capture 3.0
Two RICOH Color Scanner IS760D with ADF
Acrobat Standard or Professional (depending upon the user)
We have an extensive library (almost 6,000 documents) with hundreds of thousands of scanned pages available. The computer doing the scanning has a dongle on it that we purchase (250,000 scans until we need to purchase an 'update'); I don't have the cost available since the gentleman that handles that has gone home for the day, but I remember it being in the micro-cents per page.
We often scan documents with several hundred pages that need to be done that day and we have no problem completing that task.
A link to some of our efforts (a web front-end, or sorts, to our library) is available at http://acequia.ccrfcd.org/FileLibrary2/FileLibrary.aspx if you'd like to get an idea of what we've done.
As for putting these PDFs into a database, it'd be pretty easy to create an application (perhaps a service) to monitor a directory and grab each PDF that pops up there after Capture runs, copy the information to the database, then either delete it or move it to its new home.