By 2007, most of the nasty stuff has been sorted out (I met with Linux in 1998, started to use it full time by 2003).

Some things I have experienced (not all hardware related but, notable and crippling):

  - Additional SATA controllers had intermittent connectivity issues with Samsung SpinPoint drives
  - Same additional SATA controllers' 2 port models were fine but, same chip's 4 port model was not recognized at all.
  - Intel Speedstep was wonky.
  - CPUFreqd needed hand tuned scaling profiles for good on-demand scaling.
  - Fedora 4 mysteriously tried to redirect all my internal X11 comm via my physical Ethernet card. Needed to add an additional card as a primary network interface to solve desktop latency problems.
  - One of my systems was unable to boot any OS installed on the non-GRUB drive. GRUB was unable to fire anything on that disk (regardless of OS brand, model and make)
  - My latest system's on board Wi-Fi and BT adapter was unusable for 2 years.

I possibly had many more small problems and I either worked around that or a BIOS update came to remedy that to my luck. 18 years is a long time. :)

I'm typing this using Linux on a MSI B550 MB I built a few months back. The network and sound drivers did not work out of the box on any version of Linux I tried. Ubuntu install process would not even complete. Pop! did come up, but no sound or network. I borrowed an old USB network adapter and was able to get most everything working once I had access to the internet.

The sound still breaks after every kernel update though as the drivers continue to evolve. I've been running Linux on my desktop for twenty years now, and I couldn't suggest anyone who hasn't to try a Linux on a next-gen motherboard as it is pretty much always a disaster for a year or two.