Feedback on my 3-Week Japan Itinerary

@RobBeer, there is also longer baggage storage available at Tokyo station:
http://www.tokyostationcity.com/en/information/locker.html
Up to 2 weeks.

Tsoeder: ahhh�c You are a photographer. Some of the travel makes more sense, like just stopping at Kanazawa.

Just a reminder about daylight. The average sunrise in Tokyo in November is 6:15, and sunset is 4:46. Most shrines open around 10:00, and will close around 4:00, but you can get there early than 10:00, and get photographs before the crowds get too large. This also means that as long as you are just taking photos, you�fre tourism time can be stretched a little bit more than usually possible in November.

I remember being on an extended family vacation in Yellowstone, and being viewed as some sort of alien, when I wanted to get up early enough to take photographs of the Grand Tetons during the morning �eMagic hour�f. We were planning on lunch in Jackson hole, but I think I was up and out of our cabin at least five hours before the others cousins left theirs.

I would suggest using the time after sunset, to get to you next location, so that you can take advantage of morning magic hour. Since I have seen photographs of the gate at night, I will assume that the Tori gate at Kanazawa station will be lit up.

After leaving Disney, I would suggest not stopping in Mishima, and going to Fuji to stay overnight. This is assuming that you are getting a hotel room, and not staying with someone. The Shinkansen will start running at 6:00, and you may be able to get your photo before you eat breakfast.

When I went to Kyoto, I got up just after sunrise, and went to the bamboo forest. It was great for taking photographs, as there were only 1-2 people walking around. It was wonderful.

One on the reasons I included Takachiho on my November trip, is to photograph the cloud inversion called �ethe sea of clouds�f.

Overall, you pacing makes a little more sense.
Good Luck.