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Ok, Ive been watching The Matrix Reloaded alot lately, and Ive always noticed this (but never posted it). On the part before Neo beats those 3 agent's asses, they say..."It's the anomely" "Do we proceed?" "Yes" "He is still...." "Only human" Y do u think they say "Still"??

O, and another part. When Neo is talking to the Councellor (dont know how 2 spell it). Neo says he "haven't been sleeping lately" the Councellor replies: "well thats good"
Neo:"Why?"
Councellor:"Because u r infact, still human."

Tell me what u think

Because the suspicion is that Neo is becoming MORE than human. The Architect tells Neo that "although the process has altered your consciousness, you remain irrevocably human."

So the Agents know that although he has changed, he is still only human (something the Merovingian echoes)

The humans, some of whom think Neo is a God, some of whom have no idea WHAT he is, have no clue of this but the Councillor is just remarking that Neo still has problems, just like the rest of all humanity.