I've pondered the same questions AA. I've also never understood how something "non-physical" interacted with the physical world. If our brains are just receivers picking up our consciousness then how is that information being transmitted and how could our physical brains capture it? And how is my body able to tell that spirit that I really like apple pie? Or that my leg hurts?
If we don't understand how consciousness emerges from a brain - how does it make more sense to say it emerges from a soul? What exactly do souls have that can create consciousness? It doesn't solve the problem. It just makes it even more mysterious.
I'm not the first person to raise this point but I think it's a valid one: What does it mean to say something exists outside of space and time. As far as I know, existence is necessary spatial and temporal. How do we tell the difference between something that has zero dimension and "exists" for zero seconds - from things which don't exists at all? Aren't they identical?