Is there currently a way of including SoE guns into custom maps? I would like some of them in mine.

What do you mean by SOE guns?

If you are talking about the Apothicon Servant then you are out of luck unless you are able to rip the model and anims from the game then script the weapon.

If you are talking about just a normal weapon that doesn't have special properties, all weapons that are in the mod tools currently are from the giant. If you want a weapon from another map you need to rip it from bo3 and port it into your map.

I won't specify how to do this but just use wraith and google it.