I AM PUTTING THIS HERE BECAUSE YOU
MAY WANT TO DO THIS STUFF BEFORE YOU SEND ME YOUR ECU...
(This will save you time when your ECU arrives so you will be "Plug
in and go")
It doesn't matter "when" you do this as
long as it's done before you start using the bike.
I SUGGEST THAT YOU READ THIS IN DETAIL SO YOU CAN UNDERSTAND WHY IT NEEDS
TO BE DONE !!
YOUR ECU'S PART # IS ENGRAVED ON IT AS SHOWN IN THESE PHOTOS
THE REASON THAT YOU MUST DO THIS IS BECAUSE THESE SETTINGS CANNOT BE ACCESSED
BY ME.
THEY CAN ONLY BE ACCESSED AND CHANGED THROUGH THE DASHBOARD ON YOUR BIKE.
("Co" values are stored in the ECU.... Not the dashboard, but
cannot accessed through reprogramming)
For
Yamaha FJR1300 2006-2012
For all 3P6 ECU's except 3P6-A0
(2006-2008)
Yamaha was making major ECU fueling adjustments each year during
this time period and making adjustments to this bike's "Co" settings
until 2009.
If you don't do these steps, your bike will run rich or lean depending on
what the "Co" values are on each cylinder.
Performance, driveability and fuel mileage will suffer.
Before installing your newly reprogrammed ECU, the very first thing that
needs to be done is enable access to the "Co" mode.
This is simply to move a wire in your ECU connector so you can access these
settings, and make them all "0"
This procedure only takes about 5 minutes after you access the ECU connector.

For 3P6-A0 ECU (2009-2012)
"Co" settings are set to "0" from the factory, however
if you are not the original owner of the 3P6-A0 ECU that you are using,
then it is necessary to do this as well to make sure that they are in fact
set to "0" because someone may have changed them.
Wires are held in place by the "pin lock latch"
which needs to be gently unlocked to the position shown.
 
____________________________________________________________________________________________________________________________
TO ENABLE "Co" MODE ON USA MODELS 2006-2012
1) Unplug ECU connector from ECU.
2) Remove white "pin plug" with tweezers from 3rd position as
shown in photo above.
(you can push it out from the ECU side of the connector with the blunt end
of a sewing needle if you can't grab it well with tweezers)
3) Release the white "pin lock latch" and move (Y/R) Yellow wire
with Red stripe from bottom left position
into the 3rd position as shown in the photos above.
4) Reset the "pin lock latch" to the locked position.
5) Re-install the "pin plug" to 1st position. (new position)
6) Re-connect to ECU.
______________________________________________________________________________________________________________________________
CHANGING THE "Co" SETTINGS
1) First press dash buttons and hold simultaneously
while turning the ignition key on until "DIAG" is shown on dash.
(This takes about 5-10 seconds)
2) Then press the left button once and release it
.. "Co"
will be displayed.
At this point, I would encourage you to write down
the settings for each cylinder before you change them....
just in case you ever may want to return to stock (very doubtful, but you
never know) :)

3) Press both buttons simultaneously again
until "Co1" is displayed and release the buttons.
4) There are 4 "Co" values (1 for each cylinder) Co1, Co2, Co3,
Co4 etc
(You can toggle to each of them using the left or right buttons at this
point.)
5) Press both buttons again and hold until the CO value is displayed
then use either the left or right button to make the value "0".
6) Press both buttons again and release to return to the Co cylinder selection
and go to the next cylinder.
a) Do this for all 4 "Co" cylinder values and make them all "0"
b) When they are all set to "0", turn ignition key to the off
position.
5) You can leave the Y/R wire in the "Co" access position permanently
if desired.
_________________________________________________________________________________
TPS Voltage - (measured in DC voltage) TPS = Throttle
position sensor
*****UPDATED PROCEDURE _ 6-22-2021*****
TPS check/adjustment should be done at some point
AFTER you install your reprogrammed ECU.
This is not as critical as the "Co" settings and can be checked
when you have time.
1) Idle speed MUST be set before TPS measurement/adjustment !!
2) Idle speed should not be set lower than 1150 - 1250 rpm at operating
temperature - If it is less, then adjust it higher !!
Do not try
to adjust idle speed unless engine is at operating temperature !!
TPS voltage is measured between the solid yellow wire
and the black/blue
wire in the ECU's connector, or can be measured at the sensor itself.
Slide a small drill bit, or sewing needle alongside the wires and
push it deep into the connector until it contacts the terminals inside.
If you are measuring at the sensor itself
The negative - from the voltmeter will go to
the black/blue
wire on the sensor.
The positive +
from the voltmeter will go to the Yellow wire
on the sensor.
Voltage should be 0.675 - 0.680 volts with engine running at normal operating
temperature, and idle speed set between 1150 & 1200 rpm.
(There is no substitute for using a voltmeter such
as the "Diag" mode... use a voltmeter !!)
If it is not 0.675 - 0.680 volts, loosen screws on sensor and adjust it
to be this value.
If voltage is higher than the specified values, fuel mixture at small throttle
openings will be richer.
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