Bicycles are a convenient transportation alternative. Nearly all sites except Kiyomizu-dera have free bicycle parking. With a mountain bike it is possible to visit all interesting sites east of the river in one day. Use the paths parallel to the river to avoid traffic. You can even reach Fushimi Inari Taisha in 20 minutes or so from Gion.
Ginkaku-ji was undergoing some small renovation but was still one of my favorites. I also loved Byôdô-in Uji.
I experienced the people of Kyoto to be overwhelmingly friendly – from curious passengers in city buses to the staff of the excellent tourist information in Kyoto station.
Kyoto is a truly unique place. Don't miss places like Sanjûsangen-dô and Fushimi Inari Taisha (although those are not WHS).