I was in Kyoto last year for two weeks. There are still lots of places where you can be completely alone in nature or a garden or a lovely street. But "the Big Five" are off limits unless you love human traffic jams.
That said, Gion before 10am is practically empty. You can wander around and look at the architecture. And I know quiet places within five blocks of central Gion.
I have mixed feelings about even saying this. Please, don't go . But if you are a respectful, slow traveler, Kyoto is still doable.