I solved the problem by unmounting the gvfs directory:
sudo umount /home/user/.gvfs
After that the problem disappeared totally.
Concerning Nautilus and your desktop, you probably should switch off the "have file manager handle the desktop" option of GNOME. It is possible to set this option through gnome tweaks utility.
Hi Alejandro,
I solved the problem by unmounting the gvfs directory:
sudo umount /home/user/.gvfs
After that the problem disappeared totally.
Concerning Nautilus and your desktop, you probably should switch off the "have file manager handle the desktop" option of GNOME. It is possible to set this option through gnome tweaks utility.
Hope that help,
Cheers.