I prefer they keep the physical levels and the bonus points that you can allocate to a stat of your choosing. I think being able to increase and decrease stats yourself goes along nicely with being able to set abilities and spells you learn from different jobs onto the job you're currently playing as. It makes people play a certain job in a variety of ways. A DD might want to stack on the PIE so he can cast (and it'll stick) Absorb spells while another DD would stack on the MND so that he'll have more MP to heal (might be low on healers in that fight). While a third DD just focuses on STR and DEX for massive melee dmg. And maybe the party might need a DD to become a tank and that DD could stack on the VIT. It gives the player different ways he can play his favorite job based on what he likes doing and lets him change things up if he gets tired of playing it a certain way. They do need to make the stats you allocate more effective though.