A method is provided for activating a secondary battery having a negative electrode, a positive electrode, and a microporous separator between the negative and positive electrodes permeated with carrier-ion containing electrolyte, the negative electrode having anodically active silicon or an alloy thereof. The method includes transferring carrier ions from the positive electrode to the negative electrode to at least partially charge the secondary battery, and transferring carrier ions from an auxiliary electrode to the positive electrode, to provide the secondary battery with a positive electrode end of discharge voltage Vpos,eod and a negative electrode end of discharge voltage Vneg,eod when the cell is at a predefined Vcell,eod value, the value of Vpos,eod corresponding to a voltage at which the state of charge of the positive electrode is at least 95% of its coulombic capacity and Vneg,eod is at least 0.4 V (vs Li) but less than 0.9 V (vs Li).