I think that $4k is VERY fair pricing but... KBB says it's worth $4095 in perfect shape. People tend to not want to pay for mods or at least not a lot of them. I'd try Craigslist for $3,995 OBO and see if any inquiries come back. Given your location, I'd expect a quicker sale!
Here's a slightly modded 2005 here at the local used dealer for $3,995. 2005 YAMAHA FZ6 - National Powersports Distributors - 1-603-410-4120 and it needs tires.
Motorcycle Daily said:Derived from the FZ6's engine, the FZ6R's inline-four acquires new crankcases in order to use a pull rod clutch release mechanism with a higher leverage ratio for lower lever effort. The camshafts and cylinder heads were reconfigured for a more flexible and torquey power delivery, with single intake-valve springs to reduce parasitic losses, and with a larger airbox and tapered inlet ports to improve cylinder filling at lower revs.
I'd like to own an R1 with the STD conversion kit so it has handlebars. About $500 for that kit!