Hi
The F40 series of Yamaha outboards had their share of carby problems for a long time.
Having jets in a carby that are small is like saying the tyres on my scooter are small. They are meant to be

.
Most filters do a good job at keeping particulate matter out of the carbies but will not keep out water.
Some outboard filters seem to be a little brave and not much more than rock catchers.
If your motor has the Keihin BCF carbies on it you may be in for some weird problems causing, flat spots off idle, a dead spot at around 2000rpm and surging at cruise RPM's.
I have seen a number of these carbies come out with oversized idle air bleeds, no main air bleed, and faulty accelerator pump mechanisms.
How they ran when new is surprising, but I have worked on a number of boats that have been to the dealers with only 80 or 100 hours on the clock and they needed a huge amount of attention.
I guess when you make a few hundred thousand carbies that are lemons, what do you do?
Blame the owner, or the fuel, then make them pay for new carbies that are no better at a cost of over $1000.
The carbies can be modified to solve all of these problems with very little work, but then you will need a set of manometers and someone who knows how to use them to syncronise them when the mods are done. Also not that difficult a job.
Pilot jet size is normally okay, main jetting is a little on the lean side to keep the environmental people happy, the idle air bleeds need to be hugely reduced in cross sectional area, and a main air bleed needs to be created.
Those three rubber hoses you see at the top of the carby stack is what the main system uses for air bleeds.
Way too big.
If you want more detailed info on exact sizes I found worked for my customers F40's I am happy to share that info with you by all means.
I also want to say there are millions of experts out there with a million opinions, and that this info is only the opinion of one old bloke in a dodgy old tin shed in the outback of Australia.
But I do have over 45 years of experience, specializing in engine work from the days when you had to know how things worked on a component level.
Not like today.
Go ask some young bloke to draw an illustration of an idle circuit of a carby and say how it works.
They will probably say, "dont need to know that. Everything is EFI now."
Have a good one mate