Ok, it's just a cosmetic error.
Zaire isn't really deleted.  There was apparently just a name change, no countries have been deleted or anything.  
Think of DXCC countries in terms of the numbers that ARRL assigns.  Here is the official DXCC list, 
http://www.arrl.org/files/file/dxcclist.txt
and here are the relevant records:
9Q-9T*          Dem. Rep. of Congo        AF        52   36	414
TN(31)          Congo (Republic of the)   AF        52   36	412
The last number is the DXCC identifier.
In LOGic, go to tools/setup/list of valid values.
Click the DXCC list, click the binoculars and enter 9Q for VALUE.  Change the description from Zaire to DEM. REP. OF CONGO.  TN just has CONGO, so I changed that  to CONGO (REPUBLIC OF THE) to be consistent with ARRL.
The prefix list is fine, but you can can change  CONGO to CONGO (REPUBLIC OF THE)  just to be absolutely the best.
I'll change our master copy and it will find its way into a tables update.
Tnx & 73,
DH