Configuration not updating

[nitrogen_widget]

Hello,

I just noticed over the weekend when adding a new HD to my server that something is wrong with the configuration app or the config.xml file.
I tried to set up folder's on the new drive in the directories section of the config app & in the VA panel plug-in along with setting the skin for my MVP & the settings are not sticking.

It looks like the directories were changed in the config.xml file but I don't know how that particular line in the config.xml file should be for 3 folders. So I can't say if the ~ should be in there between folder name & location or if the file just isn't being read?

Anyone know what could cause this?
I'm running XP SP2

Thanks

[nitrogen_widget]

OK, Here is what is happeneing if I change the config.xml file manually everything is fine.
But as soon as I run the config.exe app all my video library directories & VA panel directories that show up in the config program are set to past settings.
I thought that config.exe pulled values from the config.xml if not, where is it getting the old media directory info from?