Flying (on a flight path) through Nagrand, I got multiple rare popups, as in the screenshot. I control-clicked each of them to add a waypoint, figuring I'd hit them in order. Each time I control clicked, it deleted the previous waypoint in Tomtom and created a new one to the rare I clicked. (Or perhaps it simply updated the existing waypoint.) My expectation was that each click would result in a new waypoint being added in Tomtom, allowing me to pick a path from the closest, to the next, etc.

Also worth noting, the waypoints did not create a Tomtom world map marker in the zone, nor in the Draenor world map. Not sure which map the marks belong to, but it's not the local zone map.