Yes, it's owned by the same company, but, no, the pizzas are not the same. They're similar (thin crust, wood fired oven), but we've found that VN has had consistently better pizzas (and much better entrees). I would hesitantly say that if you love VN and go to Naples expecting VN, you'll end up disappointed. The pizza at Naples are still good and they do have some different options (not at VN), so I would still recommend going if you like thin crust, wood fired pizzas (just don't go expecting VN).
Also, if you're a fan of the Coppa Di Brutti Ma Buoni sundae at VN, the version at Naples is very small. It was still good, but much smaller than the one at VN.