As far as my testing goes this is not the case. I tryed preplaced docking ports and regular docked docking ports, also disabeling and reenabeling fuel crossfeed, and it did not transfer the fuel automaticly to the other tanks. I tryed to achive this for my interplanetary ship, but the fuel does not want to flow, so I have to transfer it manualy. As for the part count, With bigger stages (~800 total parts) I usualy let mechjeb do the job, since I do not enjoy flying with low framerates.