Burden of history
It's true that users shouldn't have to know how things like the X Window System clipboard/selection mechanism works. But really, they don't have to: as the freedesktop.org documents points out, users are really expected to use the CLIPBOARD mechanism which works pretty much like clipboards on the competing platforms and live happily without the select/middle click thingy. Jarno, you only have this problem because even without an unix beard, you've been using these things long enough to know the PRIMARY selection mechanism.
21 August 2003