App-V 5 SP2 client attempting to find/create file in the package store (outside of the PVAD)

Hi all,
Hopefully I'm not missing something screamingly obvious here but I've been at this for a while and can't work out how to get around it.
I've got an app that I've sequenced (App-V 5 SP2) and can run from the sequencer with no issues but when I publish and run it on my client test box, I get a series of errors pointing to there being missing files. Fairly common scenario so I turn on procmon
and see what it's trying to do/find and see that it's looking for a file directly under C:\ProgramData\App-V\PackGUID\VersionGUID and failing because the file it's looking for isn't there (nor should it be) and is present where it should be; under the C:\ProgramData\App-V\PackGUID\VersionGUID\Root\
(which is the install directory).
If I modify the permissions on the "VersionGUID" directory and add the file to this location then the executable finds the file but fails because it's expecting to find the rest of the applications files from the installation directory in the same
location.
I've tried packaging to VFS, packaging and installing to PVAD with the same results. The only way that I could get it to launch was by setting the directories under the VFS to Merge with the local files system, deleting all files in the package under the
install directory and copying the same file structure onto the test machine (This isn't really a solution though as we're talking about over 500mb of files).
What tricks do you guys use when you come across these sorts of problems? Hopefully this all makes sense!
Thanks
DT

Deetts,
I plan on spending more time to see if I can get any better information, but a few interesting points so far.
The software seems to install a driver.
It is odd I only got the driver warning when I sequenced a second time and actually launched the software while in capture, but I have seen that before.
Also, the software ACLs the program files\client dir with some pretty interesting (stupid) permissions. It actually
REMOVES inheritance, and adds everyone full.
While this isn't a problem per se as under HF4 we can enable full VFS writes, it leads me to believe the software may be doing a lot of other bad practices, and it wouldn't surprise me if it assumed its own directory had full write rights to, and bombs if
it doesn't. Depending on how it determines its own dir may or may not be an issue. You will never have write access to the program data app-v dir, but you will under the VFS program files\client dir.
At any rate, I am going to spend a little more time with it, but just seeing what I have so far means it may not be the best candidate for App-V...but, don't ever let that deter you! We have completed many packages that were not ideal candidates with
great success.

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