Yes, you can charge AA batteries of different capacities (mAh) with this charger. It has independent charging channels, so you can charge AA and AAA batteries of various capacities, such as 1300 mAh and 2600 mAh, simultaneously without any problems. The charger uses an intelligent end-of-charge method (Minus Delta V) to detect when each battery is fully charged, which protects the batteries and optimises charging according to their individual capacity.