I do agree with you, Dynamics. I'm pretty sure that later in the future, free stats would be outshadowed by both natural base stats and high level rare/myshop equips. However, that doesn't mean that those free stat points are useless. They still make your character stronger in certain areas, although not strong enough to make that ZOMGWTFBBQ reactions.
Now, now, I think natural base stats are there so we can't really screw our characters completely. In a simpler statement, it's a newbie-friendly system. There's no reason to hate it so much.
