If the Nvidia card of equal performance is measurably faster you can stick with AMD but realistically there isn’t much pain with Nvidia. Most distros integrate the drivers fine enough.

I’d get at least 2 drives for dual booting since a linux/windows update can mess with the bootloader. You should be fine otherwise since most Linux stuff works out of the box - If you need any reassurance just search the specific part (motherboard, cpu, etc.) with “linux” in the search terms and hopefully you’ll get some info.

In my experience, though, I’ve never had hardware issues on desktop with Linux. It’s usually laptops or bleeding edge stuff that takes a couple months to get ironed out.