I also went in 2014, it is incredibly clean and organized.
I went for an important reason (marriage) but i managed to visit a place i always wanted to visit: Akihabara (lol). I could mention Steins;Gate but i already knew about it before that game/anime.
I still have a Suica card, it was useful. I think purchasing tickets would be more complicated than simply getting the card and putting money in it using a machine.
Also vending machines. My country has not seen vending machines in almost 3 decades due to criminality (they would get all vandalized). They are so convenient, extra points for being able to use the Suica inside the stations on them.
I didn't knew at the time, but i visited the park used in Occult;Nine, Inokashira Park, at that very moment the lake was also dried, which is very rare and is shown that way in that game/anime. Heh, i guess 5pb should be commended for being a Tokyo tourism promoter
It is true the Japanese don't speak English, so you have to learn Japanese
The Japanese culture is very different, it does take time to understand it. Watching media helps, but not completely. As a tourist you shouldn't have much trouble, but is best to go take a guided tour or have a good friend. Japanese people are very busy usually so this can be difficult.
Food is everywhere, and even if you don't like traditional, there are plenty of American franchises everywhere (ie. McDonalds). The trains stop at 11pm beware, the city is huge! Got to the top level of Skytree tower, you'll feel like an airplane there. I hope to return someday, and probably will.