I'm not sure if this constitutes a fix or not, but I was able to get GTK applications looking normal again by going into System Settings and changing the theme to Adwaita or Ambience. I don't think there was any theme set (or a different theme not listed)... and it wasn't easy to select a theme since separators were gone and clicking in the right area was more of a guess. Eventually I got it selected though and everything looked correct again.
When using something like gnome-tweak-tool or lxappearance I have 10 or so GTK themes, but in System Settings->Apperance there are only 4 listed. The themes that are not listed here (ones I have installed myself) don't seem to work at all. If I select Arc or Breeze in gnome- tweak-tool the appearance goes back to looking broken. So it seems like its a problem with some themes and being incompatible with 16.10? For non-Unity DEs I have added /usr/bin/gnome-settings-daemon to the startup process and that seems to have restored the GTK applications there. -- You received this bug notification because you are a member of Ubuntu Bugs, which is subscribed to Ubuntu. https://bugs.launchpad.net/bugs/1668626 Title: Upgrading to 16.10 broke GTK UI no separators and flat look To manage notifications about this bug go to: https://bugs.launchpad.net/ubuntu/+source/unity/+bug/1668626/+subscriptions -- ubuntu-bugs mailing list ubuntu-bugs@lists.ubuntu.com https://lists.ubuntu.com/mailman/listinfo/ubuntu-bugs