The throttle linkage should rest on the stop screw, usually the top or bottom carb, there's only one stop screw to control all the carbs and all the carbs are synchronized by fine throttle linkage adjustment that should not be adjusted unless you understand how it works.
I agree with the poster above, some steering systems will open the throttle slightly when at the end of travel to left or right, this gives some navigation aid since steering is a function of engine speed (no engine thrust = no steering).
But 4,000 RPM isn't exceptionally fast necessarily, a little faster than perhaps it could be (check the factory spec on this), have you ever started the engine out of water before? The reason I say it's not exceptionally fast is the jet pump will drag the engine speed down with a load while the boat is sitting in the water, so engine speed will be higher by about 2x when the boat is out of water.
How familiar are you with running your boat out of water? I don't have a sportjet and I can't speak with absolute authority as I've only seen very few of them but 4,000 RPM doesn't sound incredibly fast. My Rotax motor idles 3200 RPM out of water and that's a normal phenomenon.....
I think there might not be a real problem unless you're certain 4,000 is exceptionally fast, that motor can handle 4,000RPM without any danger. I think you should back the boat on the trailer into the water then start it up and see where the idle speed settles, it WILL be about half at least, I guess.
So give that idea a thought?
If you are quite familiar with how your boat normally runs on the trailer (Trailer running is not considered a comprehensive diagnostic testing method, basically only used to see if the boat is capable of starting), and are absolutely convinced the engine has a problem I still think you should back it into the water for a test but it is possible one of the crankshaft seals is leaking air inward, providing air for the engine to run faster than normal. Any air leaks in the induction system can cause this. But again, 4,000 doesn't seems exceptionally fast to me necessarily unless you're certain it's abnormal.