I thought here, but the prehistory of the "Matrix" (see the anime novels) is extremely stupid from the point of view of a person, even a little confronted with the IT sphere - well, the intent was to bomb the factories of rebelled robots, to make a cloud curtain so that they did not ask from the solar cells (in short, to act as soldiers would do). After all, in general, it would be enough to catch one enemy robot, to introduce a virus into it, and the latter would, when connected / synchronized with their own, infect everything possible, as an option, if the enemy network is isolated, then send a group of special forces armed with EMI guns and equipped with kulhackers, who will introduce the infection on site to enemy servers. Predicting statements about the advancement of AI that will immediately calculate everything, I will only say that if the people of that universe had enough brains to create a self-developing AI, then they would create the infection to destroy it without problems :) The most funny thing, if this happened, and people would not fight with machines as with people but as with machines, then the Matrix would not be in principle.