In a regulated mod, most are series because the buck chip is more efficient than the boost chip(as was previously mentioned in the thread)
When they are going through a buck, boost, or buck/boost chip, series and parallel becomes mostly irrelevant.
Let's assume we have a pair of batteries that are 3.7v, 2500mah, and rated for 20 amps continuous discharge. If we wire them in series, they will act as a single unit capable of providing 7.4v with a capacity of 2500mah. When we calculate the overall watt hours, you get 18.5 watt hours. If we wire them in parallel, they will act as a single unit capable of providing 3.7v with a capacity of 5000mah. When we calculate the overall watt hours, we get 18.5 watt hours. As you can see, in either configuration, you have 18.5 watt hours.
The advantages of parallel are that the unit will work if only one battery is inserted, but the battery will have its standard amp limit(20 amps). As soon as you add another to it, it will be capable of delivering twice as many amps(40 amps), as there are twice as many batteries. If you added a third, you could go to 60 amps. You could keep adding all the batteries you want, but it will only increase the amp limit, not the voltage.
With the batteries in series, it will not fire if only one battery is inserted. When both batteries are inserted, they will provide 7.4 volts at 20 amps. If you added a third battery in series, it would become 11.1 volts at 20 amps. Each additional battery would continue to add to the volts, but not to the amps.
When you do the math, 3.7 volts at 40 amps is 148 watts. 7.4 volts at 20 amps is 148 watts. Either configuration will result in the same maximum wattage.
NOTE: This does not take into account the fact that 3.7v is the nominal voltage, and a battery can actually begin giving 20 amps at the 4.2v it is at when fully charged. The 3.7v is just the nominal voltage. The same as the battery could give 20 amps at a full charge of 4.2 volts(84 watts per cell before any voltage sag under load), it can still only give 20 amps at 3.2 volts when it is nearly drained(64 watts per cell before any voltage sag under load). I am just using 3.7 volts as that is what the nominal voltage is typically considered.
In the end, you will get slightly more run time from a mod wired in series simply due to the added efficiency of a buck controller over a boost controller, but even that may not be enough to notice. Personally, I would just go with a mod that is series, as there are far more options.
Hopefully this explains the series/parallel idea in a somewhat easy to understand way.
Also, if you plan on running any regulated dual battery mod(series or parallel) at over 110-120 watts, please use 30 amp batteries to be sure you do not exceed the cell's rating. While the batteries can give 148 watts at the nominal voltage, they would only be able to deliver 128 watts when they are at the 3.2 volt cutoff voltage most mods use. Using them at 120 watts leaves nearly no safety margin when they are nearly drained, and anything over 128 watts puts them outside of their rated amp limit. When the mod is saying that it is providing 120 watts to the atomizer, it is not counting in the overhead the mod itself needs to operate the electronics inside. Assuming it only takes 8 watts, running your atomizer at 120 watts would be at the very edge of the limit for a drained 20 amp battery.