Originally I thought it had to do with changing my constructions, which I didn't think made sense. I've since figured out how to fix the problem. It appears that the zone thermostat schedules needs to come from Ruleset Schedules and not Compact Schedules. I don't know why this works (I don't speak Ruby yet), but I suspect that it might have something to do with the measure looking for the thermostat schedule, but not finding it because it needs to be a Ruleset Schedule for some reason.

Before:

After:

Originally I thought it had to do with changing my constructions, which I didn't think made sense. I've since figured out how to fix the problem. It appears that the zone thermostat schedules needs to come from Ruleset Schedules and not Compact Schedules. I don't know why this works (I don't speak Ruby yet), but I suspect that it might have something to do with the measure looking for the thermostat schedule, but not finding it because it needs to be a Ruleset Schedule for some reason.

Before: Before:

After: