Jeff, welcome to the forum. What a fine place to find an un-biased comparison between the 1503cc 4-TEC engine verses the Yamaha's 1300 (1297cc) engine.
Really, there isn't much to compare. It's like comparing apples and oranges. This is the final year of production for the GP1300R, which should tell you somthing in it self. The engine is a 3 cylinder two storke, with 170 horsepower. It has an electronic fuel injection system. Top speed is rated at about 65 mph.
There is a post in this "PWC Talk" section with all the info on the 4-TEC engines, but I'll give you a little more info here. For more indepth info, visit the thread "4-TEC engines".
The 1503 has several versions. You've specified the supercharged model in your description. The engine is a 4 stroke engine, supercharged and capable of delivering 215 horsepower at 70 mph. It has a closed loop cooling system, which is great if you run out in the open ocean. The Yamaha has an open loop.
What I found to be the most important, the Yamaha doesn't have a reverse gate on it, almost all Sea-Doo's do...........
Please, don't ask me to do a fair comparison, because in my personal opinion, with Rotax celebrating it's 6 millionth engine and 85 years of research and development, along with Bombardiers 35 years of development history, there is no other PWC on the market that can even compare to the durable reliability of the number one watercraft manafacturer in the world...SEA-DOO rocks!............:hurray: