You see I have to wonder if they ever actually got out of the Matrix at all? I actually think they're still in it...or another version of it.
It's all a form of control.
Neo is able to stop the sentinel's at the end of reloaded because he is still in a computer simulation of the real world and not actually in the real world at all.
Again, Control.
So, they're all still running around in the matrix. No-one is free at all, Agent Smith is copying himself exponentially, the Oracle is a computer program with a candy addiction, the human race is about to be destroyed, Zion is doomed and Neo is alseep. Will Neo awake and save the human race? Was Morpheus a fool for believing he could find The One? Will Zion fall?
It's quite a tense situation, I'll give you that...but what really bothers me is how do people eat dessert in the Matrix? How does that work exactly? I mean, after all....
'there is no spoon'. How are you supposed to eat, say, rhubarb and custard with a fork? Why is it that spoons that have been singled out here? Is there some significance to do with pudding that we have all missed when interpreting the meaning of the Matrix?
I'm sure it'll all be explained in the third film when Zion celebrate victory over their machine oppressors with a bowl of spotted dick and chocolate sauce. Hurray!!