We have two aquarolls, plus an onboard tank. I fill both Aquarolls and insert Puriclean, leave them a couple of ours or so. Then push one of the barrels through to the onboard tank, letting it stand for a similar amount of time. Swithing the onboard tank off to let stand, I push the second Aquaroll through the system until empty. Once the onboard has stood, I drain both the onboard and the normal water lines. I then push two new aquarolls with fresh water through, one for each system and run them out, and then drain down.
I have heard of people putting orange juice through the system, but I dont see any benefits to that. We never drink from the caravan, we always carry a fresh water drinking container. To be honest, as we never drink from the system, perhaps we dont even need to do what we do. The onboard tank can be heated to anti-microbial levels via the Alde panel, and we do that the first night on site.