do ns beta 5 waypoints work with ns 3.0 F waypoints? and vice versa?
As to default to NS maps? A few like ns_origin and ns_nothing do but most won't.
Custom maps don't change like they do with an NS update. Custom maps that change ACTUALLY get a new name because any changes made to a map, makes it a "new" map and that's something the NS dev's still haven't figured out.
Sorry about the rant.
The waypoints you have are probably for previous versions of the map. Hang tight and people will be making them for the latest versions.
In the mean time, if you want to run the older versions of the maps and want to use the waypoints, LordSkitch helped me out on how to do that.