Wow thanks for all of your replies! Sadly, notifications of your responses went to my junk folder hence my lack of input..
The problem is pretty much cleared up now after connecting a battery balancer although I do wonder why most people get away without having to use one of these. It also emerged that my voltmeter slightly overstated the voltages after I borrowed a better quality voltmeter from a friend.
As for the confusion about charging voltages, what I meant was that I had the charger set to 28.8v (or 14.4v per battery), and receiving uneven voltages on each battery. The 12v charger was a different unit that I used to bring the batteries up to full charge independently. There are no 12v appliances involved, only 230v. Temp sensor was fitted.
Anyway, like I said the problem is pretty much sorted and the voltages have levelled up and are fairly consistent with what you'd expect.
Thanks everyone for your enthusiastic input, sorry I was off the radar for so long!