Maintain cross-reference link when updating text frame contents

i've written javascript parse though every page in document , update content in page titles.  updates number scheme in form x.y.z [title] when i've deleted pages , need numbering scheme updated.  of these page titles have cross-references linking them sections of document. script takes contents of text frame , replaces new string has corrent number scheme.  whenever happens, breaks cross-reference linking paragraph text.  how maintain cross-reference link every text frame while updating contents?

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