Hi , i have the exact same problem !
did you found a way to fix your issue ? except shutting down f.lux and launching it again, didn't found other way to fix the problem.
computer specs are :
Windows 10 pro x64 2004 last uddate
last f.lux version
last Ndvida drivers. (July 2020)
Asrock M-itx A/C H270 mother board
32Gb G.Skill Ram
i7-7700 cpu
Seasonic M12 power supply
and GT 640 Nvidia card.