A lot of people seem to rate DEVONthink Pro Office.
What exactly do you need from your documents when they’re scanned? If it’s minimal, you could just leave them in a folder in Finder, where they’re searchable and categorisable (using tags). One of the things that struck me straight away when I moved over to a Mac was how much better (and quicker!) Finder was than Windows Explorer for searching.
I don’t do much with them, simply storing scanned dox as .pdfs and viewing them within a fairly conventional hierarchical folder structure. What I find most useful is the ability to view the documents as thumbnail images.
Quick Look is your friend on that. Highlight file and hit space bar. Having the finder window organised in list mode you can then use the up/down arrows to see the next file without leaving quick view.
I have a document imaging bureau and can safely say that Macs used to be ignored if you wanted to scan using anything with a feeder and certainly not the scanners we use – this was the reason I had to move away from Macs 14 years ago 🙁
I’ve moved back to Apple for all the family computers though 🙂
Try and save your PDFs as ‘image and text’ if your software allows it. This will OCR what text it can and hide it under the scanned image so, although your looking at the scanned image, you can do a full text search of the document (or any other PDF on your system).
The Mac’s indexing system should be able to process these PDFs which could make finding the right file much easier.