In my case I couldn't kill gnome-tweaks with killall, so I killed it by PID with kill.
After that, I started gnome-tweaks over the command line and it throwed an UnicodeDecodeError error. This seems to be a known issue. To fix that, you have to find out which file inside ~/.config/autostart is causing the error.
In my case the culprit was org.moson.matray.desktop and others reported vivaldi-stable.desktop. But probably you have to find that out on your own like this:
Move all files from ~/.config/autostart to another folder. gnome-tweaks should start now. To find the culprit, copy them back on by one and each time start gnome-tweaks, until it throws the error again. To fix it, remove that file or fix its encoding.