Rasher,
I'm away from my SH3 computer at the moment so am doing this off the top of my head - JScones will be here shortly to tell me off if I get it wrong!
Try this:
1. If you have a JSGME shortcut on you desktop, rename it to 'JSGME for GWX' or something similar.
2. Download the JSGME installer from:
http://www.users.on.net/~jscones/sof...cts-jsgme.html
3. Run the installer
4. When you have to put in the destination, choose the SH3 Commander folder (e.g. C:/Program Files/SH3 Commander)
5. When it asks if you want a desktop icon, click yes
6. Rename this desktop icon 'JSGME for SH3 Commander' or something similar
You should now be able to drop your mods into the MODS folder inside the SH3 Commander folder and enable them.
Jaesen, can you confirm this works?