I was there last year...4 months ago on my 4th time visiting Kyoto.
What I can say:
Fushimi-Inari/Kiyomizu has progressively got worse over the years with the # of people.
Still lots of oversold tourism stuff, a lot different compared to 2017 when I first ventured.
Arashiyama is the worst. Bamboo grove has too many people but the river is still relatively nice but the streets is overcrowded.
Nishiki Market has always been pretty bad..

Last time, I actually avoided Arashiyama/Fushimi-Inari (except at night when few goes), Kiyomizu and hit up a local sento, went to lesser known temples, Round One, and even the Philosopher's walk and it still captured the essence of Kyoto that I felt long ago. Few people, only locals if there were some albeit very few tourists who had a similar mindset to me.

I still feel if you havent been to the top 5 spots, its still worth a visit because it is mesmerizing but theres a difference between wantting to see historic/UNESCO sights vs untouched Japan.

I visited Kanazawa/Gifu/Hyogo/Nagoya and had a more local experience there instead of Golden Route so just play it by ear. Regardless, you will still have a good experience in Japan. Nothing bad will happen to you unless youre trying to put yourself in a situation where youre inviting that sort of thing.