Originally Posted by Speed of Sound
But this would also flag up a conflict while inputting runway data at any other position other than being lined up on the correct runway.
No, just add the runway check to the throttles/config check. When the throttles go up, system does a check of the actual position verses FMS-loaded runway.
As I said before: just add a check of the ND when you arm NAV before takeoff. It will stand out like dog's balls if you are not using the runway/SID you put in the box, or check the runway on the ND as you start rolling.