I think I've figured one thing out
The little girl, Sati.
Based on a combination of what I've read in previous topics, and my own opinions, I think I realize what she represents, in my quest to realize the deeper meaning of all the characters and references.
I have seen the question posed pertaining to the sunrise that the girl makes at the end of the movie. It's a very simple answer as to why she does that, and the answer is "because she can". In The Matrix, Morpheous explains to Neo that before him, there was one born in the Matrix who could control it as he saw fit. Contrary to popular belief, this person is not Neo, nor is it a man. Neo, nor any humans were born in the Matrix- they were born in the real world, and hooked up to the Matrix.
Who was born in the Matrix, then? Sati. When Sati wakes Neo up at the Mobile St. train station, we learn that Sadt's mother and father birthed a girl with no purpose. She was not a written program, nor a renegade program- but a girl born in the Matrix- the ONLY one to ever be born in the Matrix.
Thoughts?
Edit: spelling