So I think I know why I am missing capacity.
I decided tonight to dump everything from the batteries to the grid. When the batteries stopped dumping, battery 1 was at 1% - 51.4V and battery 2 was at 11% - 51.4V.
So I’ve left them for over an hour at idle and this is the result.

Battery 2 has OCVd up to 15%, and Battery 1….nada.
I think Battery 2 SoC of 15% is more realistic for 51.4V, and Battery 1s 1% is not accurate.
Because the inverters SoC is an average of the two, I can’t get it to deplete anymore, it hits 5% average and stops.
I was hoping Battery 1 would realise it’s SoC was low, and recover some, but it won’t, even after an idle for an hour.
I think my only option here is to arrange another calibration with Paul, to see if we can force pack 1 to realise it’s got more in it than it thinks.
I’ll check how much goes in to the packs tomorrow morning, but I’m guessing it won’t be 16.4, as pack 1 has quite a bit lodged in it.