I never recommend parallel charge boards. Every cell has to be at nearly the same voltage, otherwise the charger can overcharge one cell, or not fully charge another cell. This can easily create a fire situation, and single channel chargers are only designed to charge 1 pack at a time. If you need to charge multiples at a time, then I'd recommend a multi-channel charger, like the Hitec X4 AC+.
Parallel charging is great BECAUSE every cell has to be the same voltage not in spite of it. When two lipos are connected by the main leads they quickly equalize pack voltage over a few seconds and maintain the exact same pack voltage from then on. Not an average, the same voltage. Series connections can create the problem you referred to. This is why we use balance leads. Without them the charger only knows the total pack voltage.
After connecting the main leads the balance leads can be connected and then every corresponding cell between the packs equalizes to the exact same voltage. Through regression to the mean this basically balances your packs without the charger having to do anything. The more packs hooked up, the more accurate the regression to the mean.
The issue with parallel charging is the lipos will equalize voltage so fast the amp spike can melt leads or charge one battery too fast during the initial hookup. This is only a problem if a person accidentally connected e.g. a fully discharged and storage charged lipo or connected the balance leads before the main leads.
The charger can never charge one cell or pack more than another because in parallel they will always be the same voltage. Each pack will get exactly what it needs to reach 4.2v.
Edit: My Cellpro 6 is single channel and clearly designed to be used with parallel board. It has parallel settings in the firmware. I'd never be able to use the 40 amps it puts out without a parallel board. (All the parallel settings actually do is calculate the amperage on a per pack basis in the initial setup for a charge. It charges exactly the same whether you use the parallel option or not.)