You are correct. The Novax system is more about equalizing tone and tension among the strings.
Additionally it provides an opportunity to have the warm and creamy, easy to bend treble strings of a Les Paul and the bright, spanky and more pitch stable bass strings of a Strat on one guitar. Any other parallel fret scale length claiming to do this will be a compromise between the two.
If there is an improvement to intonation it is only if the bass strings are of a longer scale. In this case, the harmonics will be closer in tune and you will be able to more accurately set the intonation. This is completely different than the Feiten system. The Feiten system kicks ass in it's own way.
For anyone who thinks - as I once did - that the fanned fret system would be hard to get used to, don't worry, it's not. Close your eyes and play one. You will not notice anything different about the fret placement. Hard to believe but true.
Understandably, everyone who has never tried them says the same thing - "I don't know if I'd be able to play them". If you do any amount of research into the system you will find that everyone who tries them says how easy they are to play.