I understand that's what they mean, but this is the part that I think is either trivial or wrong. That is, depending on your choice you'll of course get different values, but it won't change anything about the system. It's basically like choosing to measure speed in meters per second or in furlongs per fortnight, or choosing the coordinate system and reference frame: you get radically different values, but relative results are always the same.
If a system has high entropy in the traditional sense, and another one has lower entropy, and the difference is high enough that you can run an engine by transferring heat from one to the other, then this difference and this fact will remain true whatever valid choice you make for how you describe the system's macrostates. This is the sense in which the entropy is an objective, observer-independent property of the system itself: same as energy, position, momentum, and anything else we care to measure.