Missing Object on iPad

I use SceneKit to construct a 3D Scene, which contains a few object. I convert all the COLLADA file and OBJ file to SCN file. Then I use a blank SCN file to put all the object together.

It looks fine in SceneEditor. And it runs on iPad. Everything looks exactly like it was in the SceneEditor.

Then I come up with some idea with the scale of one object. I change it in the property bar. It looks nice at the SceneEditor. And I tried to run it again.

Then boooom.

There was only one object left in the scene. The very first object I add to the scene. Everything else was gone. I can see all the object on SceneEditor on my Mac. They just not show up on my iPad. This happens all the time -- after I change any property of any object on the scene, the scene went wrong.

So far I was trying to build a new SCN file again with all those objects. It works. But as the project gets bigger this might be a nightmare. What is going on? Do you guys have any solution?