I checked that those wires weren't damaged, they look to be in good shape.So in re-reading your first post this started happening after doing the ignition system work, and I reading that correctly? I'm wondering if you got a new module that isn't giving the computer a strong enough RPM signal? If you have a spare I'd swap it out just to see, especially if it was lower cost or off brand module.
Make sure that none of the wiring is damaged where the injector wiring leads to the injectors especially where it passes from the outside to inside the throttle body sometimes it gets rubbed in that little rubber bushing it passes though or someone damages it putting the air cleaner one, some times it take a while for a wire crimped for that to actually become a problem so if one or more of the wires has been flattened even if it didn't break though the insulation it could be a problem. Feel free to post pictures of the wiring and engine it might not tell us anything but maybe we'll spot something.
Hmmm, didnt know that. I will have to inspect it.Ok here's another thought for you. There should be some ground wires attached to a stud on the thermostat. These ground wires the computer uses. The injectors are constantly fed power, and the computer completes the circuit creating the pulse though those ground wires at the thermostat.