At the moment, connectors serve only to make your AIs visually tidy. They do that perfectly. But configuring them is greyed out. Sooo... How about marking a connector as an output? The sub-VI name would get extra dots on the sides or below it, depending on the number of outputs it has. The order of those dots is the same as the order of connectors in the sub-VI.
Now, I'm not sure how the game code is written, but this may also solve the "complex AI loading time" problem (if loading is segmented or the visual representation of the AI causes the problem). But even if it lenghtens that time slightly, the convenience of not having to add, configure and link several modules again and again would be worth it.
Edit: Yeah, in Mass Effect they differentiate Virtual Intelligence and Artificial Intelligence. Sentient software (AI) may be intelligent, but just a VI can't be sentient. I like that and got used to that