I deleted my original post as I thought .29 fixed it, but it doesn't appear to be the case.
I'm using 1.5.8.29, with Elite Dangerous on Steam with a Vive and the Kate voice pack for ED, all on Windows 10. I run VA as administrator.
The first command I run is 'configure rift', which is an 'F12' to recenter the display.
With 1.5.8.27, running this command was changing focus from the ED window back to VA without executing the command in the game.
With 1.5.8.29, this command worked as expected and focus was not moved back to VA. Thus why I thought the focus issue was fine.
However, the next command I attempted had the same issue with the Focus. Executing 'Launch' or 'Landing Gear' or a few others that I tried still shifts the focus to VA.
Is this still an area being worked on?