The Protocol War is referenced many times in the books.
As far as I remember, there was no one clear revalation chapter about what the war was about, who were on what sides, and what are the big things that happened because of it.
So, the question is:
What exactly do we know about The Protocol War so far, based on the references on the books?
I'm interested in answers from any of the books in the series. At the time of this question, these include The Quantum Thief and The Fractal Prince.