Don't know the layout on your Suzi, but my old Honda 40-4 had three water screens. One on each side of the lower unit, plus another on the underside of the cavitation plate above the prop.
To flush the motor, you have to use the muffs, plus tape off the third screen to keep it from sucking air.
I would assume that your motor is pretty similar, and if it has the other intakes, there wouldn't be all that much of a problem.
Now that I think about it, my friends' Nissan 25 was set up the same way. Both his and mine have run all day on occasion with the third screen taped off without any anomalies.
I can't think what could have caused your problem, though, unless you picked up a piece of kelp or a plastic bag that covered the other two screens.
Most new engines have all kinds of auto-shutdown electronics that do a pretty fair job of protecting the motor. Do a compression check, and listen for any telltale lower engine sounds; if comp is OK and it's not making noise, an oil change is probably all it needs.
Best of luck;