Jeff,
I was involved with the effort as well as Jeff Mingay, Matt Ward and Dan Wexler. Mark Rowlinson can probably chime in with more specifics, but it was determined that there were several courses in the groups that needed to be moved because there were simply much better courses out there. We literally provided a list of over thirty courses that we would all like to see included and we didn't get nearly that many, but with those additions, some had to fall out for various reasons. There were also several changes to the Gazetteer section of the book as well.
Of the ones you mention the only one that surprised me was Cajuiles or Casa De Campo. My guess is there was some other reason like the original artwork being lost or something.
The truth is there are so many courses that are deserving but only so much time to get everything put together to include them. I think the list of courses included in this version exceeds that of the original version by quite a margin.