When using CC as a standalone, it should be completed after calibration but before registration, yes?
Right, CC must be done on the pixels at their original location, but after calibration (because calibration attempts to compensate the same problem in a more systematic way, so give it a chance first).
At time you can do some CC on the raw uncalibrated images. This is the case if you have a systematic defect (a dead or partially dead column for example), you could CC all the raw (including dark, bias and dark) with an explicit defect list. But not for hot pixels and other defects!
do i need a separate process CC icon for red, blue, green and lum?
The BPP supports an single CC icon, if you want to automatize the process you can use only one CC for all images. Which may or may not suits your needs (this may not be too good if some images have different binning or widely different exposure time).
Like integration, this is a process that likely requires fine tuning if you need it.
If you use dithering, have a good calibration and enough images, consider not using CC (or use it lightly) and check the result of the final (integrated) image. StarAlignement is not bothered by hot pixels and the rejection algorithm will reject them effectively. I prefer to not apply unnecessary process, although opinions varies widely on this topic.
The CC write the number of rejected pixels in the log, this is especially useful if you use it with BPP.
-- bitli