I test rode a FZ-09 at the AIM Expo last October. I also found the throttle snatchy, regardless of riding mode. I think it's a Yamaha attribute as it felt the same as my 2009 R1, before I had it reflashed and tuned with a Bazazz, which helped a lot, but didn't eliminate it. The suspension was way too soft for me, and it would definitely require some mods/upgrades to be sufficient coming from the 1199, even as a commuter (you still want to have fun on it, right?).
But now you're talking about around $10,000 after the mods. IMHO I would rather go with a gently owned Monster 1100 for even less money.
2009 Ducati Monster 1100 1100s, Stuart FL - 109104305 - Cycletrader.com
$8,495
To each their own for sure though and good luck with your new bike.