Keanu Reeves as a Christ figure is a frightening thought, but he seems to suit the purposes of the movie. Good triumphs over evil and humanity finds freedom from the Matrix. The movie is vague. Freedom is coloring outside the lines and thinking outside of the box. Freedom would mean that everyone has the opportunity to do whatever is right in her or his eyes.
Freedom is anarchy.
And that is the problem with freedom. The right to free speech inevitably means that someone assaults another's dignity. Freedom of association inevitably means that hate groups will gather. The freedom to bear arms means that somebody's child will eventually die in a classroom. There is something oxymoronic about that.