[RELEASE] Enhanced Z-Wave Plus Thermostat Device Handler - Honeywell, GoControl, CT, Linear, Trane, MCO, Remotec

I believe that when you use Z-Wave manual overrides it disable internal schedule. You can manage your schedules using custom apps to program the thermostat over Z-Wave (which also gives you many more options in terms of using remote temperature sensors, motion sensors, modes etc). Here are some apps which do thermostat programming over z-wave:

[RELEASE] 5-2 Day Programmable Thermostat Scheduler (Weekday, Weekend) with Remote Temperature Sensor for each Schedule

[RELEASE] Motion Sensor Thermostat with Remote temperature sensors, Presence detection and Schedules

[RELEASE] Mode Based Thermostat - Control Multiple Thermostats Temperature / Remote Temperature Sensors when Changing Modes

[RELEASE] Unlimited customizable thermostat