While the bike is on the computer, be sure to have the technician set the CO trim, that the valves are 0.006"/0.008", fresh plugs, and the TPS set before synchronizing the throttle bodies.
Inspect the main 30 amp fuse for signs of heat damage and be sure you are running high quality relays.
It would also be worth cleaning the ignition switch contacts and inspecting its internal wiring.
The TPS, itself, can develop a glitch right at its most common openings which can cause a nasty hiccup.