If you haven't done so, check the other threads here about "going to japan". They all contain good info that might be of help.
As far as bars go........ if you don't know about "hostess bars" ...... be careful. You can end up needing a major loan to get back out the door after a couple of drinks and socializing with the ladies. Or need to deal with a couple of guys that have lots of tatoos
.
The best "Japanese" experience for bars is to find some izakaya. These are the very small bars (some seating less than a dozen people) that the Japanese tend to frequent. They are everywhere. Each tends to serve its own particular specialty of "bar food"......and they often are great places to have dinner over a few drinks.
You mentioned what "shots" (medical) to get for Japan, I think. The US government does not recommend any for Japan other than the usual childhood immunizations and stuff like having tetanus up to date. If you are staying in Tokyo (and not spending much time in Kabukicho
) you likely won't need any special shots.
best,
..............john