The clean boot didn't help and deleting that file didn't help. ☹️
If flashes from the window into fullscreen and then back into the window about 4 or 5 times before it settles on the window. The resolution it's supposed to be set at is 1366x768, but the window it's displaying it in is smaller (which is odd). If I maximise the window (which I can do) I cannot move my mouse below the top of the bottom bar.
Also, every time I edit a setting it does the little flash betwen screens things.
Turning it into windowed fullscreen did fix it. But that's sort of only a temperary fix. x_x
Edit: I've noticed something new. I probably wasn't noticing it before with the game not running in full screen, but when I open it the game is not opening as the window on top. Instead it is starting behind. Regardless of whether I'm on the desktop or have chrome running I have to alt-tab into the game, or click on the icon on the bottom bar. It doesn't start as the main window.