I've only owned it for a month. That said, I adjusted from the throttle on my F3 (I-4 600) to my TLR (V-twin 1000) in half that time. This time I went from an F4i (I-4 600) to the FZ6, which should be a pretty straight across transition. But there's a huge difference.
1. Throttle play is adjusted where I like it.
2. At 5k miles? I would expect it to still be in sync.
3. That helped. Higher gears helped as well.
It got worse with higher elevation. Most of the trip was at 5000 feet.
I'm not an A level racer, I'm an A group track rider, albeit back of the pack A group

A level racer would be doing 1:50 at my local track (Thunder Hill) while I do 2:05.
I've ridden a CBR600RR as well and the throttle was way smoother...as well as the F3, and both F4is I owned.
I don't chop the throttle as it scares me, I keep rolling on and lean further. But the roll on is horribly jerky. I can hear it as the engine is slowly getting more fuel. Hard to replicate in text, but as I'm rolling back on (from completely off) it will rev...rev..rev.revrevrev. There's also no clutch involvement here. If I'm in 4th gear, I'll set up for a turn, roll off, brake to a suitable entry speed, and roll back on without needing to shift. But I'll trail brake as well, and hitting the throttle mid-corner with that sudden lurch isn't fun.
(You can Youtube look up DarkNinja75 if you wish to judge my :squid:liness. There's a few track videos on there.)