I have the exact same problem. I was able to do a full uninstall of all video drivers and reinstall. After doing that I was able to turn Virtual Super Resolution on and off and then enable GPU Scaling and the flickering went away.
But I am now dealing with ReLive telling me that it can't start recording unless I enable desktop recording, even though I am in a full-screen game, Not a borderless fullscreen / windowed mode. Also, it crashed AMD Radeon Settings and the Game I am playing.
Has this happened to you?