I am speaking only of the chassis itself, as well as the rear panel with B (brightness) and F (focus) markings.
I bet we'll find many of the body panels to read "PTA prototype" debossed on the inside, too, though several examples of those panels have been found on retail machines also. No other changes seem to have been made to the body panels and the PTA prototype markings weren't visible from the outside, so Apple seemingly didn't care that remaining pre-production panels snuck through onto production machines.
Following your post I checked the panels, and they do indeed say 'PTA prototype' (photos to follow).
That, along with everything else, leads me to believe this was an in-house machine that was taken/purchased/kept by the aforementioned Apple employee and converted internally to a Lisa 2/5 at some point. Again, all conjecture but since the machine never left the owner's possession (according to his daughter) it seems logical. Hard to believe(?) that so many case variations could escape Apple without assistance from an employee?
Whatever it is, it's lots of fun to look at!











