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Full speed on the highway in the rain and the engine cuts out like I'm on reserve. Fill up with gas and it's not any better. Ride one exit and determine that #3 cyl is not firing because the pipe is cold. Pull and jiggle wires. Check the float bowl and it has gas. Then the bike won't start at all and I'm running down the battery. Call for a pickup and stare at it for 15min. Try it and it starts up, runs ok in neutral, drive it down the street and it feels like only 3 cyl. This time it's #4 not #3 (not even the same coil) No ammount of wire wiggling has any effect. Bike is still all wet.

Bike sits in the back of the van all night and as expected, starts right up this morning and runs fine under load.

Coils? Do I need to do a comprehensive contact cleaning and/or waterproofing or is it finally time to replace the stock coils (and thereby plug wires and caps)

if so, what coils do I look for?
 

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I have had this issue with other manufacturers in that water can run down the plug lead and short the plug against the head, no firing on that cylinder.....
 

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You probably don't have to replace the coils - test the resistance of the primary and secondary circuits/windings just to make sure your coils are still within spec.
One possible solution is to cut off 5mm from the end of the ht lead and screw the plug cap back on - you should have better contact to the copper core after doing this. When a plug stops firing and the plug gets wet, even if the shorting problem (wet around plug cap/ht lead) has stopped, that cylinder won't fire again until the plug is no longer wet - it's why engines often start up just fine the following morning. Over years of the plug caps being pulled off the plugs the connection between the copper core and the screw end of the plug cap becomes poor.
It might be an idea to test resistance of the plug caps too. Check for cracking of the caps too - this can lead to shorting too.
Good luck !
 
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