Not sure what your "Virtual Desktop" is, but, I have Oculus Rift, and I can do the following;
Put on Rift headset, which opens Oculus software, both on my desktop and in the headset.
In the headset, you can see the Oculus Home screen and at bottom of headset screen, you see a curved Oculus panel, with various buttons for Explore, Library, Store, etc.
You can also see the whole Windows desktop, inluding the Task Bar at bottom of screen.
If I launch LFD (click LFS, which is on my Task Bar) with an Oculus Controller, then LFS opens up as normal, but there is a transuscent 'Tracking Setup' screen overlaid, so you can set up headset position.
Using normal windows or Oculus to launch LFS both work for using Rift headset, so don't know why you would want to use anything else.
Or is your Virtual Desktop some sort of VPN?