Agreed. Fast travel is ok as a feature. Actual magical teleportation is not.

Don't mix player convenience features with the story. A powerful netheril teleportation system would attract a lot of attention. I can't overlook that it doesn't. It clearly exists only for the player so the game breaks the fourth wall here.

Yeah some people aren't bothered by details like this. But the point is the runes could just as well be non-magical waypoints for fast travel. Casually placing magical teleportation systems in the wilderness is not understanding Faerun as a setting.