Can't agree with this sweeping assumption, I'm afraid.
At the corners the footways are, for want of a better term, shared. As the purpose of a box junction relates to vehicles and not pedestrians then IMO it is more logical to consider the extent of the side road as terminating where the 'Give Way' road markings end, which is well before the end of the YBJ.
OP, if you have time to alter your appeal then IMO you must get them to commit themselves and state the lawful authority which supports their contention e.g. if the authority reject these representations then they are obliged to provide authority for their claim that a YBJ may be marked, and therefore effectively extended, beyond the junction when the Traffic Signs Manual and even their own 'Give Way' markings, which delimit the carriageway here, indicate that the junction does not extend to this point.