It's always interesting to compare the information available from different sources concerning the same subject. For Packards, the best source is the company's own archives. Fortunately for me, the entire collection of the Studebaker-Packard Archives was once donated to Syracuse University, where I had (through a friend-of-a-friend type of arrangement) access to it for nearly a year. Great stuff, but it all rightly belonged in either the National Packard Museum in Warren, Ohio or the Studebaker Museum in South Bend, Indiana . . . and as I understand it, it did in fact eventually end up at one of those institutions.
No, Packard never assigned the "version" numbers to the Phantom . . . those are simply a way to differentiate between obvious differences in the photographic record of the car. I came across them in one of the many online resources about the car and its history, and they match up well with different pictures of the car I have seen at various stages during its life. The Phantom was always a "work in progress", not unlike some contemporary (and slightly later) GM concept cars.