Adam
I had the same problem. Take the cover off the unit and locate the check valves for each individual zone. They are fairly easy to identify, just follow the heating lines into the unit. Mine are brass and lined up next to each other. Check valve, If the line is cold on the outgoing side of the valve, the check valve is sticky and needs a little coaxing. Get a hammer and give it a light smack. It happened 2 times to me and both times that was the fix.
Wendy and Rick DeSilva
'08 Marathon H-3
2017 F350 platinum
Mahwah, NJ
Brant Beach, NJ
Pelican Lake, Fla