Version 46.0-1 on Arch seems not to save font selections
I haven't had similar issues with the Appearance tab, but in the Fonts tab, version 46.0-1 on Arch does not seem to change in the rest of the interface, or to save, font selections. Reverting to 45.1-1 seems to solve the issue.
Wayland session, also have GDM Settings installed. Let me know of other salient information you may need. Possible it's just an Arch build issue that a 46.0-2 would fix (don't have another distro running GNOME 46 at the moment to test), but wanted to alert the source in case it was on that end.