The blood patch which was released today introduced a new feature called traffic advisorys, these are the things that were popping up earlier. Essentialy it reports traffic in certain systems to players via the map, it also has the capability to prevent players from jumping into systems that either havn't loaded or have been marked as stuck systems.
The autopilot has been engineered to prevent you from entering these stuck or not loaded systems, which is why some people may have some problems traveling routes that they have always been able to travel before. At the moment it is more than a little buggy.