Added to the mix is the General, who was a program inside a physical squiddie, who created a shell for himself in the Matrix, and dumped his physical squiddie body. So you could say that just as the squiddie was the "body" of the General, but not his "soul", so also the shell is the "body" of the General now, which his "soul" inhabits. So this "soul" of the
Machines is their mobile essence, which they can separate from old bodies and inhabit new ones.
This was probably not thought to be the case with humans until this
storyline CloudWolf has mentioned in which human minds inside the Matrix continue to live on, despite the fact that their physical bodies are now dead.
Now I have to ask the question which I remember asking a long time ago on the other Matrix forum. In Matrix mythology, when we see human RSI's walking around in the Matrix, is that actually the mind of the human we're looking at? In other words, is the human's mind actually LOCATED inside a virtual reality program? I realize that speaking about "locations" in reference to a virtual reality program is different than speaking of
locations in a physical world. In the physical world, you can point to the spot you're standing and say, "I am standing right here." But in the Matrix, what do you point at?
Does a human mind actually "leave" the body and "enter" the Matrix--with the mind and body possibly
maintaining some sort of link that cannot be
severed if the human wants to stay alive? This would seem to be the case, since all you have to do to kill a Zionist is to unjack him or her from their connection before their mind has had a chance to "return" to their bodies. As
Morpheus stated, "The body cannot live without the mind."
It's important to make this point, because it shows the dualist thinking inherent in the Matrix movies--that is, that the mind is separate from the body. If it weren't then you wouldn't be able to "jack into" the Matrix. Your mind wouldn't be able to "leave" your body. Disconnecting someone from the Matrix before they had a chance to "return" to their bodies would not kill them.
There is actually a debate among philosophers as to the nature of the connection between mind and body. Is the mind simply a process of the physical brain? Or is it something
ethereal that is "apart" from the physical body and can both affect and be affected by the physical body? The Wachowski Brothers have shown their opinion in the matter by
creating a storyline which absolutely necessitates dualist thinking, in which the mind is separate from the body. Everything we see in the continuing storyline of the Matrix Online should reflect this viewpoint, as it has up to this point--up to and including human minds being able to live on past the death of their physical bodies.
This is also very important, because when asking questions about the current whereabouts of Neo, it should no longer be necessary to find his physical body to
locate "him". The part that is the essence, the soul, of Neo is not his body. His body is merely the shell for his soul. So even if it's disclosed that his body has been destroyed, Neo's soul may still
exist in some other place.