Our coach has the AHE-100-02S Aquahot... so, it's an older model. Our Aquahot has four zone-pumps, one for each of the three heating zones and a fourth pump for the engine preheat function. From our 02S manual I copied and pasted:
"For interior heating, it is the room thermostats that trigger the Aqua-Hot’s interior heating system. When a thermostat recognizes that heat is required in a particular area, it sends a signal to the Aqua-Hot’s corresponding zone relay. The Zone Relay responds by activating the circulation pump for that zone, which sends the heated antifreeze and water heating solution through the Heating Loop corresponding to the zone requesting heat."
I suspect the zone pump corresponding to the zone losing heat is running intermittently because the pump is "sticking" and stopping or the zone relay controlling that pump is not staying engaged. If possible, open the Aquahot and turn on the heat, then identify the pump that is not running. Tap the pump with the handle of a screwdriver or something similar to see if the pump will turn on. The pump may simply be sticking internally. If that doesn't make the pump run, then the zone relay may be intermittently operating the pump and require maintenance.