i tried the following.....
made a copy of my site 1.3.8a and then copied over the new 1.3.9c files over to the server and overwrote all files that were newer.
then patched the database.
now in admin i still get the new version available message. in admin under version io get the following.
Zen Cart 1.3.8a
Database Patch Level: 1.3.9c
v1.3.9c [2010-06-02 07:39:55] (Version Update 1.3.8->1.3.9c)
v1.3.8 [2008-08-12 10:07:04] (Fresh Installation)
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