Are you wiring as an S plan?
Is there a timer on the boiler?
Ok, you want the timer to control all of the heating?
Where are the 2 ports powered from? Room stats from the boiler supply?
where are your 2 ports powered by?
If you want to run it separately then connect the orange and grey from the two room stat connections - in parallel or you will need all of them on for the boiler to fire