Yes that description also works, I can't say for certain how easy it is to get in to replace it, these cars are designed as LHD so maybe not so easy as your one is RHD, a DIYer could probably manage it easier than the directed method issued by VW Group - health and safety apply more for workshops, DIYers accept skinned knuckles and working at horrible body positions!
There is an outside possibility that the "heater" controller has lost some of its stored terms, it initially needs to find and
store the end-stop voltages of all these flap motors, which it then stores for future use. What you are hearing is the physical/mechanical flap end-stops being reached then the motor being sent off to the other end-stop, ie being driven hard open and then hard closed etc etc, though normally it is dirt on the positional feedback potentiometer track or its wiper - or a broken bracket etc.