I learned something regarding Planet Vortex Deflectors today. If you're going to use one, do it AFTER setting up your sentries, traps, etc., because you can't set them up after you use the Deflector.

Since it doesn't remove any effects from a planet, as long as you set up your sentries and whatnot first, you should be good to go!
EDIT: You can't build artifact structures afterwords either...