Great application, footnotes (anchors) should be improved Rated 4 out of 5 stars
I tested the Epub readers available for the desktop, and EPUBreader is definitely the best. Easy to install and to use, and it supports many things like the pseudo-class ":target" (think Wikipedia footnotes turning light blue when they're accessed).
The only thing that was a bit annoying was that footnotes in Book mode don't work, because the anchors jump all over the place (they work in scrolling mode). This should be fixed, because you get entirely lost in any e-book you're reading whenever you click on a footnote.