Did see the Tsutenkaku (Aka the Hitachi tower), more shrines than I can count, the war memorial museum in Tokyo, the Imperial Palace, and the Tokyo Tower. I didn't buy a hinomaru flag, but I have one from WWII. I didn't buy a daruma doll (cus I don't know the meaning behind it), but I bought a bunch of kokeshi dolls for my family.
Also saw/went to:
Osaka Castle
Nara Temple grounds (with the world's largest wooden building [see photobucket profile for pics])
Peace tower, park, and museum in Hiroshima
Museum and Memorial in Nagasaki
Tokugawa Shogun's palace in Kyoto
Golden Pavilion in Kyoto
Miyajima
DisneySea (water/coastal-themed park connected to DisneyWorld)
Akihabara, Shibuya, Harajuku, Shinjuku, Roppongi, and Odaiba (all in Tokyo)
A sunrise from the summit of Mt. Fuji (where it was cold as f**k, btw)
The 1:1 MS Gundam statue in Shiokaze park
Baseball game with the Tokyo Giants vs. Yokohama Bay Stars
Did not see/go to (but wanted to):
Sumo match (expensive and difficult to get tickets, especially for foreigners)
Onsen (some of our group members had tattoos, which is a big no-no)
Capsule Hotel (never needed to find a place to sleep)
Maid Cafe (the "fun" maid cafes are difficult to experience without being fluent/have a friend who's fluent with you)