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I have a stock 110, (no tuner) and think I should not have to spend additional funds to make it run correctly!
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I think the MoCo is a little behind the power-curve on the system.
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I think you're right, the MoCo is WAY behind the curve on this, just like it is on most other systems. On the other hand, they still seem to be able to get top dollar for half baked products, so I'm thinking they aren't the only people who need to get a clue.
As for spending additional funds to make your overpriced Harley run decently, that was my feeling when I bought my SEEG. I figured that $30k, which was more than a well equipped midside car or loaded small SUV cost at the time, should have been enough to get a motorcycle that actually ran well without further tinkering. After fighting the fight to no avail, I had to spend additional funds to get rid of the lousy low speed response, stumbles, occasional stalls, etc. I find it to be very depressing to think that 5 years later H-D still can't come up with calibrations that will run at least as well as a worn out 1992 Chevy.
Go ahead and fight them, but eventually you'll succumb like we all have. Find a good tuner, have the bike tuned, and don't look back. And btw, my approach to this is that there are plenty of choices out there for tuning devices/software, so paying H-D more money to fix their inability to make the bikes run properly isn't necessary or recommended. TTS MasterTune is an excellent product, or you might prefer something from PowerCommander or one of the others. If the only product available was the SEST from Harley, I'd sell the bike and walk first.
Jerry