Public bug reported:

Binary package hint: binutils

Ubuntu 9.04
binutils 2.19.1-0ubuntu3

When a thin archive pulls in another archive, the members are appended
unconditionally instead of checking for duplicates.

Setup:
$ touch somefile
$ ar rcT intermediate

Repeating this will only ever add the file once:
$ ar rcT final somefile

But repeating this will add the file again every time.
$ ar rcT final intermediate

** Affects: binutils (Ubuntu)
     Importance: Undecided
         Status: New

-- 
ar duplicates files when flattening thin archives
https://bugs.launchpad.net/bugs/565227
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