The battery powered devices still have their own neighbor tables – that’s how they know which repeaters to use for their own outbound messages . So they definitely have to be included in a network repair, or they would never use new repeaters that you added. Same thing if you physically move the location of the battery operated sensor. You need to update its neighbor table or it won’t get its own messages sent out.
As far as what the error messages mean, see the error message FAQ,
In this particular case, “failed to update route” probably just means the battery operated device was asleep when the repair request came by. It’s up to you whether you want to run the repair a second time and try to get it then. If you haven’t physically changed the location of those two devices and you haven’t added any new Z wave repeaters near them or physically changed the location of any old repeaters that were near them, you don’t need to run the repair again, they can still use their old neighbor tables.