The book view editor is being changed in the next version. So suggest you wait and see what happens.
Code view is what is truly in the document. Book view is only for convenience, as each e-reader will have its own way of displaying the code.
Seems to me that most editors will not save particular arrangements of text but display it in a way which shows the structure. You can insert comments:
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These can mark out areas of importance to you and will also help anyone looking at your code.
An editor is not a word processor, so its aim is not to preserve a particular display of code.
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