Incorrect flight

Has anyone had a problem with once you fly the first leg of a mission you change batteries go back up the Drone wants to fly the same part of that mission again and if so what’s the what’s the fix.

It happens every so often. Just turn the power off on the drone, controller and reboot the app. That should clear it out - but you may still need to start from the beginning or set your starting waypoint to where the first battery ended.

Personally never experienced that.

Firmware version?
Mobile device?
Mobile device OS version?
DroneDeploy app version?