Well I really enjoyed going to Hiroshima. The prices aren't that high, unless you are in Tokyo. If you do get lost somewhere and want to ask for directions, chances are you'll get the directions you need on the first try.

I know what it's like to go to like NYC and Boston...If they people don't know they just B.S. you directions.
People in Japan are very kind as long as you don't step on their toes. For example, if you are respectful towards them they will be respectful towards you. (I don't think that will be a problem for you.)
My mom went to Japan a few months ago, her airplane ticket along with my little brother's cost about $800.
I will type up more specific details about certain areas in Japan once I wake up!
Some other general questions.. When did you want to go? Summer or Winter? Also, how much do you want to spend? Ohh why I am at it, how about one more question: Any idea on what you want to visit?