I've noticed since fitting Frankinpump and acid washing, the acid wash and one, possibly two subsequent washes are reasonably clear, the water having a slight bio coloured tint to it.
Further washes usually result in milky water and what looks like a thicker milky interface layer. I take this as being the start of an emulsion. If I leave the pump running for more than a couple of minutes an emulsion will result ... it's obvious it's an emulsion because it will break with acid.
If at the point of getting milky wash water, if I add a small quantity of acid to the next wash, the drained water returns to clear.
Does this sound similar to what you're seeing, Dave?
I also suspect that bio that's been emulsified and broken with acid is far more difficult to dry.