The area near the piers in Bayonne is certainly more industrial than residential, but , what pier area isn't? Getting to and from the pier by car , taxi , bus or whatever during daytime hours will be perfectly safe. Having passenger service running from this area and in this magnitude is a first and I'm positive that RCCL will make it a good experience. I can tell you this from experience, as much as I like sailing from NY, it can get very conjested in the pier area when there is a big ship or multiple ships. I have a feeling Bayonne will be just fine.
Besides, that whole area is controlled by Tony Soprano isn't it? He wouldn't let anything bad happen in his own backyard.