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Not very likely.I have a 1997 Honda BF 90. Under load the rpm doesn't go above 3000. without load it goes up to 5500. Is it a fuel pump problem?
Ok update on engine problems. Honda 90 hp has 4 carbs. 1-4 top to bottom. While overhauling the carb, found that #1 carb float needle was closed shut. So no fuel going into carb #1. Also noticed all the float levels on both engines were off. After overhauling carbs and adjusting float levels I field tested the boat and tada, problem solved. I also checked compression and all cylinders were in specs. So it makes sense to overhaul and take your time. What is really surprising is that the engine is 1997 model and burn 1.5 gallons an hour both engines together. Its good to adjust air/fuel mixture by checking the spark plugs. Start with 2 1/2 turns and +/- 1/4 turns if running rich or lean.Dang! See, I knew someone would have a better list of things....I just didn't know it would be you!
It sounds like you've really taken good care of those outboards and you know WAY more about them than I ever will.
They're 2 years older than my Dodge Gen 1 Durango and it's OLD!
I think you're probably on the right track for this looking into the carbs. As you probably already know, the balance for them is pretty important for full power and smooth operation. You didn't mention balancing them but I'm guessing that you do.
The running ok up to 3k and then falling out and dying during decel thing sure makes me think fuel delivery but I suppose it could be something else. Do you know what sort of engine protection is built into the CDI?
The nice thing about having a good runner right next to it is that you can swap things you are suspicious of like ignition coils or the CDI.
But I don't think I would change the plan to address the carbs first. Especially since you're probably getting pretty good at cleaning them.
Please let us know how it goes for you.