Creating a prefab loses settings/connections (Resolved, kind of)

[BrendanKZN]

Hi all, I have tried to search but cannot find an answer.
To explain in short when I create a prefab of a gameobject that has a UI button or Event trigger on it loses all the settings/connections I have done in the On Press and On Release. I'm sure it does it with the others too. I have setup an entire control system on one scene now I need this duplicated on new scenes/levels. What might be happening here?

[BrendanKZN]

I actually just found a post long ago, prefabs don't keep references that are outside of itself. Thought I was going mad.