Start with the attached DesignerCraft and start the flight scene. Switch to the astronaut using ']' key. Notice the front landing gear begins to retract.
The front landing gear does not use normal landing gear retraction, but instead is connected to a rotator with input assigned to AG2. When switching to the astronaut, the rotator's input controller gets reset to replicate commands from the astronaut. Since the astronaut has AG2 disabled, the landing gear retracts. The problem appears to be that input controllers with inputs assigned to an AG do not respect the Replicate AG setting on their command chip, which is set to disabled in this case.