I agree that we can’t really answer the question “how is He present?” adequately. It is a mystery that is beyond our comprehension. I think we can scratch the surface of understanding though.
Recently I’ve been thinking that the key to this question (or one of the keys) is in John 6:63. *“It is the spirit that gives life, while the flesh is of no avail. The words I have spoken to you are spirit and life.” *
Now I know that many protestants use that verse to argue that Jesus is speaking figuratively or symbolically. Their mistake is believing that speaking *spiritually * is the same as speaking figuratively. That logic denies the *literal reality * of the spiritual.
In that verse, Jesus is not back pedalling…He’s trying to get his followers to think on a higher level. He’s saying that our *life * is not derived from our flesh, but from our spirit. Our spirits are what take a bunch of ordinary matter and turn it into a living, breathing, growing body. Without the spirit that matter simply returns to dust.
Our bodies are not made of anything much different than the bread and wine that is consecrated at Mass. We literally are what we eat after all. If *our * spirits can animate common matter into a complex organism, how much easier is it for God’s spirit to animate the matter that was once bread and wine, turning it into his own body and blood?