I found this post by "Smithy" in the old forum in the "woof-CE needs you" topic:
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I've noticed woofce touching ntfs partitions (windows system 32 and other places).
This seems like ill behaviour to me and could present a security problem.
And it is causing problems with win on boot. This is persistent, even on a usb frugal with no save,
so it might be bridging some flags on the partition.
I'm not so sure the title of this thread is relevant if some maverick is planning a
partnership with microsoft!
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I was not able to find any responses to this post.
Is this still the case?
If so, under what cirumstances?
I would like to be able to state, (without being wrong), that a current woof-ce Puppy frugal install on a usb stick, with the save location on the usb stick, would not modify anything on the HD if none of the partitions were ever mounted by the user.