The Matrix Revelations
Summary
Two years have passed since the Siege of Zion. Much to the ire of Commander Jason Lock, the Deus Ex Machina, in response to Neo's request for peace, had taken The One at his word and sent an army of Sentinels aid the people of Zion in the reconstruction of their city. However, many of Zion's residents were grateful of the help, if initially wary of working side by side those machines that had so shortly before been trying to kill them.
In response to the Smith Epidemic, the Matrix was completely re-programmed and all of the inhabitants were informed of its truth. While there were a substantial number of people that decided to stay in the artificial world, there were also an overwhelming number of humans who demanded their freedom. It was given to them without question, but many Machines were worried that with such a loss of their human crop, they would no longer have enough energy to sustain their existence. As such, the Deus Ex Machina had a number of his machine researchers look into alternate sources of energy.
Meanwhile, the Merovingian sees the re-programming of the Matrix as his golden opportunity. In his never-ending quest for power, he sends his Exiles out into the artificial world to gauge how much the Matrix had changed. It is the sincere hope of the cunning program that he will be able to control even more of it than he already does.
Finally, those humans that the Machines freed from their captivity find themselves overcome with an immense level of disgust and sense of violation upon learning how the world they thought they knew became the world that they now live in. With a frightening level of universalism, they thirst for revenge against the Machines. With such turmoil both on the surface and beneath it, it is all Morpheus, Niobe, Link, Kid, and the other survivors can do to keep the newly freed in check. However, a discovery will soon be made by them that will forever change the course of history of both worlds.