Now that you've got things straightend out about the location of your hotel in SJ you'll want to do mucho research on sightseeing/places of interest, etc. There are a lot of things to do in a city that size so narrow it down to the things you would enjoy most since you only have 2 nights there.
We like to take the ferry boat over to the Bacardi Rum Factory and take the complimentary tour of the factory, the rum drinks and the live musical entertainment. We also like to hop on a city bus that takes you "outside" the city. We hop off, look around, check it out and hop back on and repeat. This is a good way to meet the locals......everyone speaks english, just about. Old SJ is near the docks, DON'T miss it! Just a few thoughts.....
Jerry and Kirk