How to import only "missing" E-Mails from backup?

Hello everyone!
I have a problem with mail. I set up a new MacMini (w/ Mavericks, i7, 2014) from a backup of an older MacMini (also Mavericks, i5, 2012). I used the migration client and it all looked just fine, when I first started working on the new system. First thing, which was odd: I had my project folder with LOTS of content lying on the desktop (some 14 GB, a few thousand files in multiple subfolders). I noticed, of those 14 GB 12 GB went missing. No problem - I just copied the files from my old system (which I still have and which still works).
However, after I've been working with the new system for a couple of weeks, I noticed the same thing that happened to my project folder apparently happened to my (local) E-Mail folders. Again, the folder structure is still there, but tons of (mostly older) e-mails are missing. Since I've been working with the new system for quite some time now, the above-mentioned "delete and replace" approach is out of question, because all new e-mails, which I filed in the local folders would be lost.
As I still have my old system as a backup, it is no problem for me to retrieve all old e-mails manually. But is there a way how I can import only those mails, I have lost during migration? Or in other words: How can I sync the new and the old mail folders while avoiding duplicates and keeping the folder structure as is?
Every comment is highly appreciated! Thanks in advance..!

Quit Mail. Force quit if necessary.
Back up all data before proceeding.
Triple-click anywhere in the line below on this page to select it:
~/Library/Mail/V2/MailData
Copy the selected text to the Clipboard by pressing the key combination command-C. In the Finder, select
          Go ▹ Go to Folder
from the menu bar. Paste into the box that opens by pressing command-V, then press return.
A folder window will open. Inside it there should be files with names as follows:
          Envelope Index
          ExternalUpdates.storedata
Move those files to the Desktop, leaving the window open. Other files in the folder may have longer names that begin as above. Move those files, if any, to the Trash.
Relaunch Mail. It should prompt you to re-import your messages. You may get a warning that the index is damaged and that Mail has to quit. ClickOK. Typically, the process takes a few minutes, but it may take hours if you have gigantic mailboxes. In that case, you may be able to speed things up by temporarily adding your home folder to the Privacy list in the Spotlight preference pane. Remove it when Mail has finished importing.
Test. If Mail now works as expected, you can delete the files you moved to the Desktop. Otherwise, post your results.

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before asking my question i'd like to mention that i'm a french spoke...
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J
Import terminated successfully with warnings.
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So after analysing this log file, i created
the appropriate drives and folders... as the
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And i started to [b]IMPORT ONE MORE TIME. with:
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and the following message appeared in the log file:
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. . skipping table "AN1999_BDAT"
. . skipping table "ANPK"
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and only 2 new tablespaces (originally 3) were
created without any data in ( i check that in
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How to import data (with full import option) succefully
MORE THAN ONE TIME from an exported dump file ?
Even if we have to overwrite tablespaces , tables and users.
thank you very much

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