i will try to be descriptive .new engine install so i am driving the home and the car ran great .the next morning i driving to work and watching my gauges and notice my temp is climbing .it's getting pretty warm so i pull over fast and the engine dies .i call a tow truck get it back to the shop and i find out the problem with the fans and fix that .i try to start the car and i get white smoke with a yellow tint. i check for coolant seal break it checks out ok but still smokes. when i run the engine 3-4k rpm the engine start cutting( zoom ...zoom...zoom) so i look at the commander and notice the injectors looks good but between the zoom injectors go to 0 .what do you think?

 

During engine deceleration they are suposed to go to 0 duty. IE, your dont need fuel while decelerating. They are usually set to come back on around 1200-1500 rpm or so, unless it's been changed for some reason (if you set it higher you get flames out the exhaust, etc).
Start with the basics, look at your plugs, do a compression check on front and rear rotors, check for water in the oil, etc.
Also, this is most likely not a power FC problem so you may get a better response posting in the 3rd gen forum.
-Spence