I have the same issue: i've already done months ago everything you written, but till now CM always launches VR mode and no way to change it. Finally game crashes. Final result is that i can only play with my VR (Vive 2)Content Manager also enables you to create 'presets' for each settings page.
For example, I have one preset called 'VR' which sets the video output to SteamVR, lowers some quality settings, reduces the visible draw distance, etc, etc.
I have another called '2D' which outputs to my flat screen and sets everything to 'high'.
Very handy when I want to switch between the two output types.