For colours I'd want black or charcoal-grey, something that would give it a sinister street-fighter look without catching unwanted attention from local authorities. I'd keep away from graphics, just nice and understated, but I like the idea of having the frame and wheels painted a contrasting colour like red.
The engine would be a 998 or 999 displacement and either a V4 or V-twin, something with attitude and an exotic flare. I'd like five valves per cylinder and fuel injection to keep up with the times and ram air through a single air duct.
I'd go with a double sided MotoGP style swing-arm only for the performance advantage. I'd have 2 headlights on the race-rep version and 1 on the naked version.
As for price, as much as it had to be in order to ensure the absolute best. I'd also sell a limited number in order to keep demand up.