Got the same flashing on my Windows 10 pro / integrated graphics i5 lenovo laptop - it seemed to happen after I placed a factory (maybe from the smoke particles effect?)
Hey, good timing! I might have finally figured out the source of the bug, but I'm not able to test it myself since I've never been able to reproduce it. Could you download the new update and see if the bug still occurs?
(For the curious, the bug comes from Godot's particle system, which can sometimes cause problems if the particle FPS is lower than the game's FPS and their "Interpolate" flag is set to true. I've updated all particles in the game up from their default 30 FPS to 60 FPS and disabled interpolation, so I'm hoping it works now!)
(This bug has been a thorn in my side for months now, since I can't trigger it on my own.)