Anything that deals with electrical will be a fortune. $400 is kind of crazy! As for the tune, are there any other shop that does tuning? You can always wait for maps be available for download. $400 can get you a set of rubber and a few other things. i.e exhaust protector, block off plates, exhaust hanger, and better brakes! haha$400 to install the full yoshimura exhaust and power commander
$350 for the custom dyno tune
$229 for 600 mile service
I'd say wait after 600 miles service to install the parts since you're not that far off from it.