That's how it works right now, not a bug. The map in the PDF is a fixed overview picture of the whole route. It shows the line with the start and finish flags. The waypoints are listed underneath, each with the same number and icon it has on the planner map, along with arrival times.

I've noted your request to show the numbered waypoints on the PDF map too. It's a good idea, especially for printed roadbooks, but it needs a different way of drawing the map. I can't promise when it will come.

In the meantime, if you want a map picture with all waypoints on it, use the "Map image" tool in the planner (Toolkit). It lets you download an image of the route with numbered waypoints, which you can print beside the PDF.

Have a great trip in Norway!