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Your requirements seem to differ a little from those mentioned in the thread Harry linked, so I'll just throw in a few comments:
If I understand correctly, you want to be able to read PDFs containing two scanned pages per A4 page? Doing this on any 6 inch device is going to be a pain in the ass, even with decent scrolling and zooming implemented (which you shouldn't take for granted). If you have the bucks, go with the iRex. If you don't, before you go out and buy a smaller device, research into converting your PDFs so that each page only contains one scanned page. That way, your files should be readable even on a smaller screen device.
As for annotations, you'll only really get them on the iRex, as far as I know. Don't get your hopes up on that one.
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