Please reveal your setup a bit more.
So do you have an external monitor hooked to your laptop, and the game running both on the laptop screen and duplicated on the monitor? And do you swap the monitor with VR when needed? If the latter, it's possible that the monitor thinks it's VR so moving the missing window to, say, to the center of the screen with VR it might show in the middle of your monitor as well after which you could move it to where you want to. Maybe... I'm not too familiar with VR but I know for sure that there's no monitor roomrect file, a monitor is just an extra screen whilst VR is a bit more intelligent device.