Well I have three batteries on the stock alternator and my rig hasn't gone nuclear. So theres that....
I mean this in the nicest way but it sounds you don't know much about electrical systems, because the size of alternator has nothing to do with how many batteries you want to run. Let me try to draw som easy to understand comparisons to explain this.
Electricity is just like water, the water plant produces clean water (Millions of Gallons per day aka MGD) and pumps it into water towers waiting for you to turn on your shower or whatever. This more or less the same as what happens in your car, the alternator produces electricity (80 amps & 14v) that it stores in the batteries (tanks) until you need to use it. Volts = the pressure pushing the power through the pipeline, AMPS = the measurement of energy moving through (think of this as a flow rate, like gallons per minute), Ohms = restriction due to the "pipeline" this could be due to a resistor or a long run of small diameter wire.
Taking it a step further the transmission pipelines from the water plant to the water tower are the same as the wires from your power source to the final device. A larger pipe will flow more water, a larger wire will flow more AMPS (current), smaller pipes will cause restriction and flow less water, smaller wires will restrict (more Ohms) and lessen the flow which equals less AMPS passing through.
So if the water level in the water tower gets too low the plant can only fill it so fast, how could this cause damage to the plant? It can't.
Same goes for your alternator if the batteries are low on charge the alternator will still pump all the amps it can back into them.
This is a helpful image