I have similar problem. I see lots of Nautilus windows in wnck-applet, but when I tried go to console (Ctrl+Alt+F1) and kill 'em all, I didn't see any processes. After returning to the Xorg, all "fake" windows were removed.
user@user-G31M-S2L:~$ lsb_release -a No LSB modules are available. Distributor ID: Ubuntu Description: Ubuntu 11.04 Release: 11.04 Codename: natty user@user-G31M-S2L:~$ uname -a Linux user-G31M-S2L 2.6.38-9-generic #43-Ubuntu SMP Thu Apr 28 15:25:15 UTC 2011 i686 i686 i386 GNU/Linux user@user-G31M-S2L:~$ dpkg -l "gnome-panel" ii gnome-panel 1:2.32.1-0ubuntu6.5 launcher and docking facility for GNOME user@user-G31M-S2L:~$ dpkg -l "*wnck" ii python-wnck 2.32.0-0ubuntu2 Python bindings for the WNCK library /var/log/syslog contains lots of messages about nautilus segfaults, so I think that it might be useful and I attached it here. ** Attachment added: "syslog" https://bugs.launchpad.net/ubuntu/+source/gnome-panel/+bug/701469/+attachment/2151798/+files/syslog -- You received this bug notification because you are a member of Ubuntu Desktop Bugs, which is subscribed to gnome-panel in Ubuntu. https://bugs.launchpad.net/bugs/701469 Title: wnck-applet generate a infinite windows -- desktop-bugs mailing list desktop-bugs@lists.ubuntu.com https://lists.ubuntu.com/mailman/listinfo/desktop-bugs