Nothing to do with .lua, everything to do with layers. If you don't know how to add CPs at all I would suggest you read "Getting Started." If you do know how and just wonder why it seems that you can't move the first four, it's because you're still working in the base layer in ZE.
Maps are set up in layers. The base layer applies to all maps, while individual layers can be loaded for different map modes (since, for example, you wouldn't want capture regions in assault). Go to the circled part:

And click "change" to switch to the layer with the CPs in them. The conquest CPs (and associated regions/paths) are in the "Conquest" layer, the assault CPs in the "Assault" layer, etc.