How did Germany deal with the East German communist Government structure after unification?
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Accepted answer
Technically, West Germany (the FRG) did not annex East Germany (the GDR). Instead, the GDR declared their accession to the FRG. A treaty regulated the details.
The GDR had a post-communist government for about a year. They did disassemble much of the political security apparatus and also acted to prevent the destruction of some documents.
The more senior police, military, judiciary, and administrators were pensioned. Their pensions were much less than comparable West German officials would get, but they got some money in D-Mark (and later Euros). It is anybody's guess how the purchasing power compares with what the GDR would have paid in Ostmark.
Juniors could stay on, but their careers slowed down. Recently a former Volksarmee officer made General in the unified German army -- two decades after Reunification.