This cruise is a charter so it is the company that chartered the ship that is offering the package for the extra money. Not sure if it includes all the transfers, or regular savings that come with a RSSC sailing. I would think that they would be included but this can vary. You have to book through this particular firm so the agency discount may or may not apply.
However, I do love to have Marc's wonderful analysis on these issues. It is important to look at the whole cost picture and the ramifications both positive and negative of doing your own thing.