Like the pencil these are for specific subsets of use cases, they are not a primary interaction mode but more like specialist support for optional peripherals, the same way desktops support graphics tablets and trackballs. When I described Mac interfaces as keyboard/mouse you didn't say "oh, and also graphics, tablets, trackballs and VR headsets". They're an edge case.
Yes... but it's still a very touch-focused system. The mouse support on iPad, you'll notice, has very little precision in where you click. It's a round dot like a finger - you can't precisely click a few pixels. They found a way to make a touchpad while keeping the touch focus.