[2] The FJR1300 was introduced to Europe in 2001,[3] before arriving in North America in 2002, with the 2003 model year designation, and offered in a non-ABS version only.

Yamaha added adjustable vents to the FJR1300, allowing the rider to direct air closer to or away from the body.

Bodywork is all new on the front half of the bike for better airflow and engine heat management, and a new faster-acting windshield mechanism was introduced.

The implementation on the FJR1300 includes 'D-Mode', which incorporates two driving modes, 'sport' and 'touring', the primary difference being smoothness of throttle response.

On the auto-shift and Electronically adjustable suspension versions progressive LED cornering lights were added as well.

The final-drive is via shaft, encased within the swingarm, which has mono-shock suspension with a remote quick-set two-position adjustable pre-load.

Instead, the YCC-S system allows the rider to shift using a set of manually-operated push-buttons on the left handlebar, or via the standard foot-operated gear-shift lever.

Of note is that the new clutch can be retro-fitted to prior models of the FJR1300 if owners are so inclined[12] The frame of the FJR1300 is a twin-spar design manufactured from aluminum alloy; the engine is a fully stressed member.

The 2006 and later models have a fused, switched cigarette-lighter style accessory jack in the left central locking glovebox.

In Generation I and Gen II models, by default the shield returns to its lowest position when the key is off, however some riders choose to disable the 'return' function.

In the Gen III model, the windshield maintains its position until changed with the rocker switch, even when the ignition is turned off.

A number of changes were made beginning with the 2006 model year, including adding a rider-adjustable airflow system.

In the UK, the FJR1300 has replaced the Honda ST1300 Pan-European as the patrol motorcycle with several police forces, following that model's withdrawal due to concerns over high-speed handling.

The FJR is the patrol vehicle used by the police force of Trinidad and Tobago including the units in the convoy of the President and the Prime Minister.

Vietnamese Police only use for special events like Xi Jinping visit or Trump - Kim summit.

EVS opts for keeping the factory Yamaha parts, with a much narrower overall body, and adding lighting to flow with the motorcycle.

Multiple jurisdictions have tested and switched to the motorcycle for its comfort, handling, acceleration, and factory integrated controls of police equipment.

Several other agencies across the United States have also made the switch due to the Yamaha's ruggedness, dependability, and control.