Today was much better, I was able to find a good hostel. I also managed to get a free tour of Asakusa Temple and a pretty good deal for electronic dictionary at duty free Laox store in Akihabara. All the good dictionaries, by the way, do come with vague English instructions like the Yellow Brochure (Light issued) says. Learning all of the functions is complicated, but the few things that I can do now are pretty impressive.
As far as traveling, I was surprised how little I got lost along the way. Some stations and transfers are a pain, like Asakusa on Ginza line to Asakusa line. But most are rather painless. As far as fares go, I think going with cheapest rate and then using fare adjustment was the best idea. As far as comparisons go, I would say that Japanese subway system is less complicated than that of New York but more than that of Moscow.
Streets are perhaps harder to navigate, because of the "chome" system. I pretty much need a map every time. But then again blocking things tends to do that.
Dining was also an interesting experience. A word of advice: Do not choose the store with a lot of people nearby, because the owner will not have much time to figure out your mumblings and will become upset. Another word of advice, just say it was very delicious after its all done [my grumpy hostess actually smiled].