I just upgraded wxGTK to 2.6.2-r1 and then restarted aMule 2.1.0. When aMule window is open and I switch to another dekstop, aMule window minimizes to systray. This is true for XFCE4, not tested with other desktops. aMule window should stay open after switching desktops. Recompiling aMule doesn't help.
Hm, as a sidenote: I think I remember this behaviour from kde as well. Please have a look if this is true for some other window manager, if you have any. I'm not sure this is a bug..
Any updates on this? Can't reproduce here with fluxbox...
I just checked with wxGTK-2.6.3.3 and xfce-4.4 now. Same thing.