I caught that too and wondered what that was all about. I liked it, but I could have done without the Trinity dying scene - a bit (ok, a lot) over the top. I never could buy into those two hooking up, she always looked too old for him. If there had been any chemistry between the two of them, I might have been able to tolerate the love story part of it, but they didn't and I couldn't.
Agent Smith, you rock! (soon to be seen in Lord of the Rings III).