I would say "it depends." We preferred POFQ when our DD was younger (3 through 7). The serpent slide at the pool and the mardi gras animals are visually appealing to younger kids. The resort and pool area are smaller and easier to get around. Also, the food court never felt mobbed which the POR food court really can get.
Now that DD is nearly 10, POR is our (her) favorite. The play area with the Tom Sawyer theming is terrific. The pool is bigger and the slide is a bit longer and has an extra curve compared to POFQ. There is the "fishing hole" which is kinda fun. Also, POR is where the whole PO resort gets the bike and watercraft rentals (which you don't really need with the smaller kids, but once their old enough to reach the bike pedals, the surrey bikes are a real hit).
The resorts have shared features -- like the pools and bike and watercraft rentals. I've found, however, that you usually stick to the resort where you have a room. If this is your first visit, go to both areas and get the feel. You really can't go wrong. They are both great. We were at POFQ in April and will be at POR in December.