Well, if you only use it as an appliance, it's super simple. Just copy the books/documents to the memory card, and you can read them or draw inside them with the pen…
Now, what if you need to export the annotations/drawings out of the device? The "Reader" and "Notes" apps have a "Snapshot" button that exports the current page to a bitmap (PNG or GIF) and saves it in the internal memory (unfortunately, not the removable microSDHC card). Then you need to move/copy those files to your desktop—there are two ways to do it: either use the official synchronization software for MS Windows, or take advantage of the fact that the device runs Linux.
I've always done the latter: moved them to the microSDHC card using command line (the community-provided terminal-emulator application), because it's natural once you understand the basics.
But it seems you'd prefer the former, and so I've just tried the official software for MS Windows too. I run it in VirtualBox and it seems to work fine: you can copy the bitmaps in bulk directly to your desktop. (random screenshot)
It's kind of lame that those are only bitmaps, but someone has
made an application that can take the annotations in bulk and merge them back to PDF.
All in all, I dare say the EA800 is fantastic as an electronic replacement for paper. It can display PDFs and you can write/draw on it with the pen; it allows you to take a screenshot of the page and you can copy that picture to your desktop. It can double as a desktop peripheral: tablet. So far so good…
It's other features that aren't very useful in practice: there's a camera and a microphone (neither particularly good), an experimental (read: almost unusable) web browser, limited options for combining different media in notes (kind of what MS OneNote does: mix text, drawings, pictures, audio/video, parts of websites etc. in one document)…