I could see where the Intruder would be something like the "New and Improved Architect" although still something just doesn't jibe with that. I mean if the Architect was around for the other previous versions of the Matrix, I'm sure he would be around for any other upcoming versions.
But because of Neo's choice, things are different now.
That is true, but still I get this feeling that this Intruder is just something the Machines see as a tool and not the actual creative hands of the Matrix.
Or maybe not...
A theory or a suspicion that I have always had is that the Architect is
not the sole governing body of the Machines. Like every program, the Architect performs within his function. His function, so far as I have seen has been more on the upkeep and care of The Matrix also he seems to serve as some sort of "messenger" to those programs under his command.
This leaves the Intruder and who he might be and his function, and that is going to be the most difficult question (with the evidence we have so far) to answer. We know that the Intruder is more powerful than your average Agent, also he seems to be searching for someone (although who exactly is up for grabs). We also see that he can be haughty, issue threats and is determined to carry out his goal.
Whether or not his attitude is something of false self perception remains to be seen. The Architect did not seemed to be worried about the Intruder's threats of deletion (although from the cinematic, that's not really all too clear, I'm just relying on the dialog).
That leaves another question if the Architect is genuinely threatened by the Intruder, or is the Architect is just stringing the Intruder along, feeding into his ego just for the end result. The Architect can be just as crafty and tricky as the Merv and I think we may just see some "Merv-like" qualities in the Architect just yet. Anyway just some thoughts I wanted to throw out, I am anxious to see where this goes !
