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After upgrading from Ubuntu Jellyfish to Numbat, my desktop seems broken? Super key doesn't open menu, dark theme/settings doesn't work. How can I fix this?

One of the wallpapers has XFCE on it, but I didn't change my desktop environment. Also of note, when I open the terminal it doesn't look the same as it used to. Instead of the dark purple window it's a black window with white text and the window's icon is a red "X" with a dark blue "T" on it.

This is a headless machine and I connect to it through remote-desktop.

If I go through the applications menu (manually clicking, the super key does nothing and my keyboard does not have a "Fn" key) and go to settings I get the window on the left. Changing the settings in this window does nothing. Right clicking the desktop and clicking "desktop settings" I get the window on the right. This window correctly changes the wallpaper.

When I open the home folder I get Thunar.

My guess is there are two desktop environments competing or something right now? How can I fix this?

Also, weirdly, if I click my name in the upper right I can "lock screen" and "log out..." but I can't "switch user," "suspend," or "shut down."

Thank you in advance for any help.

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