Hi WV,
Cyouza looks amazing. We would have loved to stayed in that area but we don't have enough time unfortunately.
In the alps we are staying in a ryokan at Hiyaru Onsen.
http://www.okadaryokan.com/eng/warakutei.html Doing the ryokan onsen experience in the alps between Takayama and Kamikochi is one of things we're most looking forward to in regards to accommodation - right up there with four nights at the Park Hyatt in Tokyo (we got a decent deal...).
Just realised there were a couple of mistakes in my revised itinerary so here it, again:
Wednesday, 15 July 2015: Home-Tokyo
Thursday, 16 July 2015: Tokyo
Friday, 17 July 2015: Tokyo
Saturday, 18 July 2015: Tokyo (day trip to Nikko)
Sunday, 19 July 2015: Tokyo
Monday, 20 July 2015: Tokyo-Kanazawa
Tuesday, 21 July 2015: Kanazawa
Wednesday, 22 July 2015: Kanazawa-Takayama (via Shirakawago)
Thursday, 23 July 2015: Takayama - Okuhida
Friday, 24 July 2015: Okuhida (day trip to Kamikochi)
Saturday, 25 July 2015: Okuhida-Kurashiki (via Himeji)
Sunday, 26 July 2015: Kurashiki (day trip to Naoshima)
Monday, 27 July 2015: Kurashiki (day trip to Hiroshima and Miyajima )
Tuesday, 28 July 2015: Kurashiki-Kyoto
Wednesday, 29 July 2015: Kyoto (day trip to Nara)
Thursday, 30 July 2015: Kyoto (day trip to Koyasan)
Friday, 31 July 2015: Kyoto
Saturday, 1 August 2015: Kyoto-Osaka
Sunday, 2 August 2015: Osaka-Home