Setup:
As seen from log, I have two physical screens with different resolution, the larger being the primary screen.
In addition, I'm using multiple (4) virtual desktops.
Up to and including version 0.12.29 I could start Factorio on any virtual desktop on the primary screen in fullscreen and switch between the virtual desktops (via shortcut) without hazel (and Factorio even noticing).
Problem:
When I start Factorio in fullscreen, the loading screen starts correctly in fullscreen on the primary monitor, but around the 30-60% progress bar, the virtual desktops somehow get killed and I'm not any more able to switch between the virtual desktops with the configured shortcut (e.g. [Ctrl]+[F1-4] in my case). Factorio succeeds loading. When I quit Factorio, the virtual desktops keep broken. Relogging into my user account does fix it.
Factorio Log
Unfortunately, I haven't a log from 0.12.29 laying around as I've already tried it multiple times with 0.12.30, thus factorio-previous.log is identical to this one.Edit [7.4.2016]: updated title