Got a response from Microsoft if anyone is interested, see the Gotdotnet thread at
http://www.gotdotnet.com/Community/MessageBoard/Thread.aspx?id=36164&Page=1#36830
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This is a weird problem, but has been reproduced.
We have a main application assembly, that in turn references the varios
assemblies that make up our application, this has grown to quite a large
number now.
Recently we noticed assemblies previously included due to an 'autodetected
dependency' we
