I voted for reloaded, because after seeing it, I believed the third and final one would be brilliant. However, the third is deceiving. Although visually incredible, the story is really poor.
Now what I expected to see revealed in the third movie, didn't happen, yet I still think there are many clues indicating that I may be right : Even when they are outside the Matrix, people are still in it. Just let say that they are in another level, another part of it, but they are still in the matrix. I just find otherwise ridiculous that Neo can affect machines by force of will outside the matrix, and that an agent can go into a living being outside the Matrix. Then, look at the end, how Trinity dies: with all those things inside he body she should be writhing in pain and agony (much more than when she got a bullet in second film), but she instead peacefully discuss things with Neo before dying. Then, all those hurting things are artistically pinning her body instead of randomly eviscerating her, that I find strange. Plus other such kind of details everywhere (example: people who connect to the Matrix get a metallic stuff fully in their neck while it is twice as long as the human neck is thick...).
Well, maybe you don't agre with my suspicions?...