I think that the main point of this series is about Lelouch's attempting revenge on his father for not doing a thing to save his mother or to help Nanaly! Since Lelouch started it all to make an world that Nanaly can live peacefully.
The rebellion was/is just a tool for that, sure he did noticed that this is not his fight alone anymore in the last episodes, but it still is his personal feelings/goals that drive him, it's not like he really care about Japan freedom, he just need an army to fight Britannia, it's nothing more than a "coincidence" that this will also result in the freedom and reraise of Japan.
Because of that, i think that C.C., even if she is having little screen time, is still a big piece on the history itself! She is the main heroine after all! :P
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