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I've got posession of both right now. I have a 2000 FL thats carburated, and a 2002 that has Fuel Injection. It's a little unfair, as the carb bike has other engine mods, but both bikes are the same model.

The fuel injection is nice, no warm ups, no chokes, and no coughing and sputtering. On the other hand, I like the throttle response of the carb. My specific gripe with fuel injuection, is that during rapid shifting, the engine rpms don't seem to drop as fast as when the slide goes down on the carb.

For every day ease of riding, FI is the way to go. If you ever plan on doing some engine work, go with the carb.
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