The channel ordering in live:cut depends on which channels were selected for the live:cut project Project in the first place. For instance, when you have four channels selected in Just Control, then you will have four channels in your live:cut project. Channel ordering goes from top left to bottom right, as can be seen in following screenshot.
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In case you have four channels connected inJust Control and you are only using two channels (in this case, Channel1 and Channel4) for live:cut, then the channel ordering changes accordingly. Please see screenshots below (Channel2 and Channel4 are connected but not active in live:cut mode).
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If you are working with a different set of channels for different scenes and you want that “CAM4” always stays as “CH4” in live:cut, then you can do that with different live:cut templates Templates and channel mappings. That means that you will have to create a live:cut template Template for each scene. So you will have a live:cut project Project for a three camera scene, a five camera scene and so on.