My first question: why the fuses are in the negative side of the battery ?.
My second : why more than 60 KW are flowing through the shunt ?.
For you to have a reduce power dissipation, one must do some calculations, if the shunt is for the standard 50 mv drop the power dissipate would be 1200 *0.05 = 60 watts.
So for your case, it would be better to get a Hall effect clamp type ammeter which you could get it digital and arrange the battery replacement with a small isolated power supply, this way the 60 watts dissipated will become around less than a watt I( the ammeter power and the losses caused by the hall effect clamp).
Also, you could get a universal hall effect clamp that can be connected to the standard either 200 millivolts or 2 volts setting of a Digital volt meter
Your first reply indicating the PV and Hydro currents and the 6 ( 4 in use) inverters were not well displayed so I can not comment on them.
The PV panel shows 00, and the hydro 04 amps
Normally, PV and Hydro currents go into the battery and the inverters out of the battery and they cancel out to a net value, being the inverters the greater sinking current if all are maximized.
Can you describe each inverter and its use with time parameters usage ?.
It seems to me that your system may be over-built and over powered without need, because a good electric power management was not implemented.
Can you describe in detail your power usage, with time parameters included, to see where you could optimize your system and minimize it for greater efficiencies and lower losses. ?.
LASTLY: cabling resistance is another solution for your current measurement ( I hope that you have maximized their wire thickness to reduce the losses while operating).
If such GREAT power is being used, then 48 volts may have been a bank too low voltage for such system.
For 10 and 20 KW systems, we have used 140 and 240 volts banks, everything much lower currents and easier to reduce the operating overall losses with a master system using two inverters ( for redundancy), here is the place where one can use commercial UPS systems in a more economical settings.
Nando