Slash...
The color of the injector does not change anything in the harness'.
A 2009 600 SHIFT RMK has the 2 injector DC-CFi-2 system on it.
2010 AND 2011 600 RMK has the 4 injector, CFi-4 system on it. (The 2011 600 RMK was still in the IQ chassis)
IF you are trying to run the Power Commander on a 2009 600 RMK SHIFT with the DC-CFi-2 (unique in the IQ chassis, this model this year only) .... then the Power Commander for a 2011 PRO RMK could possibly work "plug/play"... They look like the same color/function/pin on the 26-pin ECU connectors.
Since the 2009 600 CFi-2 in the 600 RMK-Shift was UNIQUE in the IQ models to that specific model/year ONLY (predecessor of the current CFi-2's).... there is a good chance that it slipped through DynoJet's application table.
Have you talked to the engineers at Power Commander about this? They are pretty darn helpful.
If I have this right...
You need
1) A Pin breakout list/diagram for the 2009 600 CFi-2?
2) Pin breakout list/diagram for a 2010 & 2011 600 CFi-4?
.