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bobbovine
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So here's what I know. The manifest for the applications main EXE is trying to direct the SxS subsystem to back up two directories in the applications tree and then follow a different path in to the applications DLLs. On a physical machine the assemblyIdentifty name variable of the main EXE's manifiest directs the SxS subsystem to do so like this:

name="..\..\Program\ProgramManifest"

and it works. Under ThinApp the ..\..\ directive is being ignored and instead of marching to directory levels up the directory tree SxS is mearly appending ..\..\XXXXXX to the probing path and obviously not finding the DLLs there as that path doesn't exist.

I've been banging away at this for days and as far as I can tell this is a bug. Any comment from any staffers? I'm happy I have identified the issue, but at this point I'm clueless as to how to fix it.

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