Adobe Acrobat XI - Preflight tool - error List of CIDs missing in CIDSet of embedded CID font

Hello,
I am generating a PDF documents with use of Apache FOP where fonts are pasted to the document. I am getting an error "List of CIDs missing in CIDSet of embedded CID font" and I am curious. Since the cid is not found in the provided font how acrobat is able to find the correct character? I also run analyse which checks if all text in the file use embedded fonts and the result was fine.
Could you explain this behaviour?
What kind of problems may result from missing the cids?
Thank you for response.

So it is (how Bill@VT said) problem of generating the result pdf document. Does a font have to meet some requirements? Because I can see the characters in a font viewer but after embedding I see the error.
Also I would like to ask for correction and if I get righ how the correct character is found.
We work with TTF fonts.
1. For embedded fonts
pdf file contains table with glyf ID and glyf representation
pdf file contains cmap which maps Character code (unicode) and glyfID
during rendering a file finding correct glyf is clear since we have character code
2. CID fonts
pdf file contains table with glyf ID and glyf representation
pdf file contains CID table wich maps CID and glyfID ( CIDToGIDMap)
pdf file contains table which maps character code (Identity-H, Unicode) to CID
during rendering we have character code and we get CID
based on CID is looked up character metrics
based on CID is found glyf representation
Is here something what I am missing or I forgot to point out?

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Adobe Acrobat XI - Preflight tool - error List of CIDs missing in CIDSet of embedded CID font

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