Doesn't sound like your problem,but...
If the secondaries are adjusted too loose, There'll be a loud sucking sound from the secondaries and it can bog and start to backfire out the carb. It'll run fine if too tight.
To test, while running with someone at the helm, slowly close the secondary 'trap doors' with your finger. If it's running too lean from being too loose, closing the trap doors will bring the fuel/air ratio back to where it should be. Also, if the cause is too loose secondary trap doors, closing them with your finger will suddenly make the boat surge ahead. Hold onto something when you close the trap doors.
To adjust, there's a tiny spring wound around the secondary shaft on the starboard side. Loosen the little screw and turn to tighten the tension.