I put together a repository for print-friendly versions of the Sequences. It consists of a pretty naive scraper which I feed into pandoc. It spits out markdown documents which I then convert to epub, pdf, etc.
I have the first two sequences completed and I plan on doing all of them eventually. Check it out:
I've been wanting a printable copy of the sequences to read through in meatspace. I wrote a quick scraper and uploaded the results here http://pwnee.com/Sequences/list.html
Inter-linking doesn't work, but I just wanted a printable version anyway.