Compare the battery voltages, not the percentages of those two batteries, as some have indicated that percentage is not a reliable value.
This is not a settings issue, otherwise it would do the same on both.
You are probably experiencing a battery with a bad cell, which seems common recently. Retailer should replace it.
Which FW version are you on?
I tested autoland today because I wanted to drain my battery, I was 3-5ft above ground just in case.
25% first warning (I set this)
15% second warning and autoland slowly begins, but throttle is still responisive and goes up pretty swiftly
13% hovering a foot up with full throttle, not enough power to go higher
11-12% barely above ground, no throttle response
10% landed, sticks barely move the motors in any direction
Unfortunately I don't remember the voltages, but iirc, 10% was about 10.6V.