I have rEFInd installed on window's EFI partition, and it boots either windows or linux (on separate drive though). It's been like that since skylake came out,

I have rEFInd installed on window's EFI partition, and it boots either windows or linux (on separate drive though). It's been like that since skylake came out, and I never had issues with it. As long as you're not installing linux bootloader in the same EFI partition, it's not going to cause any issues. If you're using MBR, then you should probably stop doing it.