Could it be that those are shared spawn points, in that there are both an Azshara's Veil node and a Stormvine node at the same spot, with Stormvine being displayed on top? Easy way to test, delete one of those Stormvine nodes, if I'm right, an Azshara's Veil should appear below :P
(Tradeskill) Nodes should be auto-added at least for Gathermate (as a waypoint between the two nearest waypoints, so it should still be rather optimized) but imported nodes don't get noticed until you re-create the route.
How can i change the route for which TomTom shows the arrow?
The way I understand it is that Routes selects the nearest node which is included in a route, and starts from that one.
So, to change to e.g. mining nodes when you are on a herb route, stand next to a mining node with no herb nodes immediately nearby, so you can be sure it's the nearest, and "start" again.