Now that the basics of the mod are in, I want to revisit how mobs are set in the factory.

The initial idea is a factory programmer block. You will basically put in an item containing information on the mob you want to program and the controller block. It would then spit out a programmed controller block for you to attach to the factory. This would replace the "hit the controller with the prism" mechanic.

May I ask, why you would like to do this?
Just right-clicking is quite immersive I think and I certainly like that your mod doesn't have any Interfaces at all.
Are you planning on additional features, like requiring addition items or power to program a prism?
I have seen that you have added quite a lot to your TODO list, so you probably already have enough to do ^^

It was more just we thinking out loud when the mod was first forming. Very probably not going to happen :)