Since the charge time for break-in is 16 hours, fanatics will first let the 9000 safely discharge them, and then run the break-in.
However, if you don't do this, all it means is that the first of the two charge cycles it does will be a slight overcharge the first time around if your batteries were not totally discharge to begin with. You won't hurt them, but it all depends on how fanatical you are.
Also note that it will display the capacity measured during the intervening discharge cycle, BUT unless you happen to catch that measurement during the 1-hour rest period, you will have to wait until it finishes the second charge. When it does finish, it will once again display the overall capacity it measured during the discharge period.
Basically, as long as one tells the 9000 what the capacity of the cells are when doing a break-in, it will automatically calculate and set the proper charge and discharge current for you, and do a timed charge.
In fact, this break-in measurement is about the closest you'll get to battery manufacturer's specs as far as capacity goes, since the Maha follows the battery industry standards.
So again fanatics when they make their capacity measurements will not merely charge to full and do a discharge, but will utilize the break-in method for the most accuracy.
Caution - at some point one may become so engrossed with battery charging, that their scanner starts to collect dust.
