Basically you can tie it into the BBB’s soft power button (it’s on the BBB header) so the RTC powers the bone on whenever the alarm is programmed to fire (alarm times are programmable via I2C). This could be useful if you want to run the controller with battery/solar power, and wake the bone before the next scheduled event. For instance you could have the BBB power off overnight (or when solar input voltage drops below a threshold), between scheduled events, etc.
Used this method for a project last summer.