As time went on, the audience began to understand the storyline of the movie. When the Matrix was born, there was a person, a hacker, who could change the Matrix at his will.
In Zion, the last human city, there were a few people who had been born in the Matrix, and they were all released by this hacker.
After his death, the oracle prophesied that he would return and lead humans out of the Matrix to regain freedom.
The following plot was simple. Neo recovered his strength and got familiar with the programs in the Matrix while strengthening himself with it being the foundation.
Obviously, the rules in the Matrix were different from those in the real world. The agents could borrow any human body in the Matrix and take full use of the rules in the Matrix. In the Matrix, they were god-like existences.
Unkillable, able to change into anybody, could bend rules and control time; they could do anything unimaginable to humans.