Hi,
A few seconds after the engine is started the starter battery and the two leisure batteries are connected together through a relay under the driver seat. (is that same in UK?)
The charger monitors all 3 batteries separately and charges them together. When all batteries are empty it charges at a maximum voltage of 14.8V. When one of the batteries nears it's maximum capacity (measured through a drop in current through the battery with a shunt resistor at the negative pole) it starts a pulse charging scheme. Few seconds on, few seconds off. That's what you see on the display.
Since your leisure batteries are still empty your starter battery will be full and triggering this behaviour. After a few hours the charge state of the batteries will get equal (because current flows from the full one(s) into the empty) and from that moment charging will be more efficient.
The basic cause of this is the fact that you cannot charge batteries with different charge state connected together in the optimal way because they are in a different phase of the charging curve.
The only good solution is to separate the charging of the leisure batteries and the starter battery. This happens for example when you hook on to electricity. That's the reason why VW tells you to hook up regularly. Without EHU your leisure batteries will degrade quickly because they are almost never charged fully by the car alternator.
Another option is to install a DC-DC battery charger. This will generate the optimal charging curve for the leisure batteries without interfering with the starter battery charging curve. The two leisure batteries can be charged together as they have the same charging state because they are permanently interconnected. I did chose for this one
https://www.redarcelectronics.com/eu/dual-input-50a-in-vehicle-dc-battery-charger because it fits under the driver seat where the relay is for connecting the starter and leisure battery.
Because all necessary connection points are available under this seat installation is quite easy.