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When using source code embed method, there is a need to re-embed a fresh code on the page every time the form is modified/edited. Otherwise, the latest version changes done on the form will not take effect on the currently embedded form.
Were you referring to the Phone Number field being not included in the submission Email?
You can update the Notifier as well by re-creating a new Notifier using the Create New Email button
Save the form, and then get again the full source code and re-embed on your website.
Let us know if this did not resolve the issue.