I know have a Sony, which have collections like Kindle, but I have an Opus before, which had folders. The books I have had around are more or less the same. Perhaps I'm a bit strange, but with 3000 books in my reader, no matter which way to handle it, I wouldn't know what to read.
BTW, I created a nice epb book with calibre where you could find all the info about the books I have at a moment in the reader. I don't generate it anymore (it was authomatic), because I didn't open it, I look the library.
But well, everybody their ways.
And the tool you say, as a toc of the books in the reader, yes, it's possible to do it, and in a extremely simple way in linux/unix with shell scripts. Harder in DOS, but it can be done. I have a similar one for checking the coherence between my folders and my database. But I'm only an old programmer who still thinks that shellscripts are a wonderful tool