If you like the looks of the 07 keep your carbed 01 and paint to your liking. the 01 is a better more reliable bike.
Well the original poster did some good upgrades, like ditching the M&M for a Carb.
And while the engine and transmissions were well built, speaking only for myself based on the experiences with my '01 Ultra, I know there are some other areas of those '01 and older bikes that could use improvements. Having gone through four stators I know the electrical systems are challenged at best. The rear swing arm is the old hollow "box end", where the axle passes through. They have a propensity for cracking all the way through. On my bike I changed out the swing arm, axle, and bushings to the '02 later and used the swing arm pivot axle kit from Howard at motorcycle metal. I also used poly bushings for the swing arm pivot shaft too. Another issue those bikes have is wiring. For a while there HD used some lower quality wire. The copper strands had a tendency to break inside the insulation from heat and flexing. It was difficult to find as the breaks were not visible and with movement came intermittent electrical issues. Common breaking spots were at the injectors caused by heat, engine shaking, and vibration, and along the right side of the frame behind the fairing caused by flexing and road vibrations.
Like the original poster I really liked my '01. However due to age and a whole bunch of these type nagging issues I finally sold it and picked up my '06 CVO Ultra.
Based on all the previous posts and his replies, I'm sure that whatever decision the original poster makes, it will be ideal for him.