I highly recommend the latest Pacific War series book on the Yamato, (
http://www.hlj.com/product/GAKPW-50) which is based on a very detailed CG rendering of the Yamato and very informative about the appearance and layout of the ship's detail. It also features an amazing, anatomically correct, highly detailed cutaway physical model of the Yamato's 18" turret, featuring full working interior mechanisms down to functional semi-automatic breech mechanism and scale turret roller bearings.
I actually have all three books mentioned above, the Super Illustration, the earlier Gekkan (
http://www.hlj.com/product/GAKPW-11) book, and the ATOS, plus Gekkan Pacific War CG book on the Yamato. I don't read Japanese, so I have to judge by the pictures.
The details presented in the earlier Gakken book (
http://www.hlj.com/product/GAKPW-11) are based on a very detailed 1/60 scale physical model of the Yamato. However, many of the details on that model, such as hull plating, directly contradicts the few pieces of original IJN engineering drawings that survived the war. Many more contradicts some surviving photos of the ship. I get the impression that model Gekkan used was based on an earlier stage of research when less information about the ship has been discovered. I also suspect the Tamiya 1/350 scale Yamato is based on a similar stage of research as the Gekkan model because they share similar features that have been abandoned by later interpretations of the Yamato, such as the 1/350 Kure model.
The ATOS book seems to be from a later stage of research than the Gakken 11 books, and corrects many of the details that was questionable in the Gekkan book. But that book has numerous problems of its own that does not reconcile with available photo evidence. For example the connection between the main superstructure block and the aft director tower is directly contradicted by available photos. The ATOS book also feature some geometric inconsistencies that only becomes apparent if one tries to actually construct a physical or CG model based on his interpretation. For example the shank of the anchor can't possible fit in the length of the hawse tube without protruding 3 feet above the weather deck. Skulski failed to detect this.
The Pacific War series Yamato book seem has a very detailed CG model of the Yamato, including interior spaces. The details on this model mostly conforms to the Kure model (1/10). There are a few places where the CG model departs from the Kure model, and there the author seems to present both the Kure interpretation, and his own, plus photographic justification for his own. So I think the CG book is very outstanding indeed. The geometric problem found in the Skulksi ATOS is detected here by the CG 3D model. The 3D model correctly located the end of the anchor shank 3 feet above the deck opening of the hawse pipe. Unfortunately the renderer concocted an unconvincing solution by having the anchor chain somehow arcs through thin air to connect with the D ring at the end of the anchor.
The Super Illustrated book is also excellent, and generally comparable in the amount of details offered. In a few details the interpretation of the Super Illustrated book differs from Pacific war series, but on the whole they agree. I personally regard the Pacific War book to be the best as far as reliability of details illustrated goes, closely followed by Super Illustrated. I think both books incorporate latest information and very currently informed speculation. The reason why I placed one over the other is because of the illustration. The quality and detail of CG in Pacific War book is unimpeachable. The quality of illustration in the Super Illustration book is also certainly top notch, but contains a number of drafting mistakes that suggests the illustrations were directly drawn in 2D, instead of being drawn off 3D models. Notably the Anchor shank problem was brushed under the rug by exquisite but physically impossible drafting. The fact that a 3D CG model would uncover geometric inconsistencies that a 2D drawing would miss would seem to make the 3D CG model of the Pacific War series books more reliable in terms of getting the complex 3D shapes and relationships of Yamato's components and superstructures right.
Incidentally, the Kure 1/10 scale physical model offers the only seemly plausible solution to the anchor shank problem by incorporating a chain ramp on the upper end of the hawse hole to enable the anchor chain to ride over it and reach the shank from a proper angle. Gekkan model solved the problem by placing the lower end of the hawse opening lower on the side of the ship than is indicated by photographic evidence. Tamiya's 1/350 Yamato adopted the same problematic solution as the Gekkan book.
That's my 0.002 cents.