First, it is counter to Word's design philosophy to put things to be edited by the user in the header/footer of a template. The headers and footers should be picking up or reflecting information in the body of the document. IMHO, better practice is usually to use a cover page to hold the first instance of the Mapped Content Controls. That page need not be printed and could even be deleted after it is filled in.
With your different even and odd, I understand the desire to use mapped CCs to have the same information in all headers and footers.
Location of a CC in an even or odd header/footer should not cause problems. It is still linked to the XML part.
With the CC that does not replicate:
- Check the mapping.
- Try recreating it and copying to the other locations.
Screenshots do not convey the needed information about document structure. Can you attach a copy of the problem templates or documents based on the templates?