Hi Daniel
Unfortunately I have spent only 5 days in Hokkaido, and 2 days in Shikoku,
so I cannot help you much.
There is an article about Hokkaido tour in Bicycle Quarterly 51. I haven't
read it, but I assume it will help you.
The following website has very good articles about Hokkaido tour:
The last year or two there have been at least three very detailed Japan
tour journeys posted at crazyguyonabike.com . Definitely have a look if
you have not already checked them out.
Not sure if it is rider preference or indicative of Japan as whole, but
frankly I was somewhat surprised that