Captain Nebula wrote:
Mr. Scott's Guide to the Enterprise.
The problem with that reference is that Mr. Scott's Guide to the Enterprise is a independant work of fiction by the writer Shane Johnson. Large sections of "Guide" is supposition on Mister Johnson's part.
The image you posted (from page 95) is of a shuttle that is significately smaller that the shuttle from the movie. The side doors are different shaped. I've include a production photo of the model shuttle used in the movie. Note the sizes of the aft docking ports.
Incidentally, the picture in Mr Scott's Guide is actually of this smaller variant designed to be seen aboard Kirk's ship; it has the prominent side door and the larger docking tube in relation to overall size.
Given it's size, the Vulcan shuttle probably could have landed on the flight deck, but would have been too tall to have fit on the deck below the flight deck, the "maintanance shop."