Japan 25 day Itinerary

Hi I am traveling to Japan for the first time in January of next year. I have outlined an itinerary, but I would like any feed back that people may have for me:

Arrive Tokyo
Tokyo 3 nights
Night Express to Hokodate
Hakodate 1 night
Sapporo 1 night
Niseko 2 nights
Night Express to Sendai
Sendai 1 night
Nikko 2 nights
Hakone 2 nights
Kyoto 3 nights
- Day trip to Otsu
Hiroshima 1 night
Miyaijima 1 night
Nagasaki 1 night
Osaka 2 nights
Nagoya 1 night
Tokyo 2 nights

Thanks for any feedback that you may have.

Note that most night trains cannot be used for free with the Japan Rail Pass:
http://www.japan-guide.com/e/e2356.html

The itinerary looks good, except the side trip to Nagasaki, which I think is too busy (access to Nagasaki is time consuming). If you want to visit Nagasaki, I recommend to spend there two nights.

I have gone over my current itineray and this is the new thinking:

Tokyo 1 night
Limited Express to Hokodate
Hakodate 1 night
Sapporo 1 night
Niseko 2 nights
Limited Express to Sendai
Matsushima 1 night
Nikko 2 nights
Hakone 2 nights
Kyoto 4 nights
- Afternoon to Otsu
- Day trip to Nara
Miyaijima 1 night
Nagasaki 2 night
Osaka 1 nights
Nagoya 1 night
Tokyo 4 nights

I think this would be better. Any more advice?

Yes, I think it is a small improvement.