Don't get me wrong, epiphany is quite nice (good job!). It is small and effective, which is really important for normal users. Maybe adding back the bookmarks menu (as in mozilla) would be helpful? On reason for this is that a lot of users have formed their mental model around the classic IE and Netscape bookmark menus, despite how bad of an interface approach it may be. Or maybe given time, people can get used to the new approach?
Cheers, --- mx
gnomedesktop has lots of vague complaints about the epiphany bookmark system, though I can't make much sense of it and I'm not sure whether it's just the same kid posting repeatedly. And I've also heard some vague criticism of the bookmarks or toolbars from more reliable sources.