Your '09 hasn't got the abrupt throttle cam of the '06s and '07s. However, maybe you could still use either an after-market throttle tube such as a G2. But what you are referring to is where the original throttle tube is adjusted. I did my '06, drew a profile and used a hacksaw (others have used a Dremel):
(Click on image for larger view)
More pic
here.
@mcatrophy:
Thanks very kindly for the reply, and the photo gallery . . . looked through them several times . . . it's not exactly clear what is before v after . . . . I'm getting that it is a top end throttle cable issue, rather than a FI mapping or throttle body issue?? Are you slathering lube all around . . . the green stuff? Is this picture showing the line that basically is planing off the "accel" side cam of the cable turner?? (whatever that white item is) . . .
Or, you mentioned after market throttle tube . . . "G2" ?? G2 meaning whatever the proper after market throttle tube for Gen 2, or that is some name of specific throttle tube???? But, point being, that this off idle "lean" condition or seems like loss of of fuel flow control until revs can get up over . . . 3K . . . is due to throttle cable restriction??? And the OEM cable tube is too tight, and replacing the tube would be the more ultimate fix? If so, that might be a little easier than dealing with the lower end or throttle body mods . . . which I thought is where the problem is . . . . What about slathering a bunch of ye olde cable lube in there???
GX
I'll try to answer your specific points.
In your original post you asked about "filing of the throttle tube" process, I was trying to answer this.
When Yamaha introduced the Gen II in '06, they altered the cam profile at the throttle body end to give a very rapid response of the throttle from off to on. (My personal guess is so that it felt as lively as the Gen Is in spite of the higher gearing.) Combined with the fuel cut-off on the overrun that the fuel injection gives, this meant for a nasty lurch as you rolled on the throttle coming out of corners.
To help compensate for this throttle body cam profile, you can change the profile of the hand-grip throttle tube. This is originally circular, no variation in radius of the cable groove during the rotation. This is where "filing" comes in, you can alter the tube cam profile, my first posted picture shows my drawing on the end of the end of the cam plastic of my wanted profile for the groove, that I subsequently filed down.
Aasland is correct about the commercial G2 throttle tube replacement. ("G2" is their name, not to be confused with our referring of the 2006-2012 FJR as "Gen II".)
As you infer in your second post, this is doesn't address the FI fuel cut-off, but that wasn't what you appeared to be asking about in your first post. Your 2009 has a sensible throttle body cam profile, but still has the FI cut-off; a power commander or similar can fix that, and is probably your best option if you can't control that off-on transition.
Oh, yes, the "slathered green lube" was what I found when I dismantled the throttle tube mounting, apparently one place where Yamaha put on sufficient lubrication in the factory.