Prefabs script references

Hi.
I have a question about new prefab system.
I have two prefabs in my project: enemy and path (0).
As you can see in the Hierarchy screenshot, path prefab has 3 gameobjects, which are the actual waypoints. Moreover, in my enemy prefab I put a little script with a list in order to get a reference for each point.

I tried to insert the waypoints using "classic scene" and the "prefab mode". The only way I found to achive my target (put waypoints in script references) is by put path prefab as a child of enemy prefab.

How can I put those 3 waypoints in enemy prefab script references without "childing" path prefab using this new prefab system?

Anyway, thank you for reading and sorry for my bad english