As Wax has said it's a lean fuel charge from sitting and drying out. MSD enhancers sometimes do it too when you install them for the first time when swapping out the stock CDI for one. Since you're having it happen more often, next time you ready to shut the ski off after a ride and evacutating the water from the waterbox, rev it up with a quick flick of the throttle, hold the kill switch and hold the throttle wide open at the same time. This will bring a rich fuel charge into the engine and also act like a shot of primer for the next time you fire it up. That should also help with the lean runaway condition. Some carbs just bring in too much air for the size of the cases which dries them out more, just need to offset it with a good throttle dumping on the wind down.