Remember that if you bought SH3 in the Uplay or Steam service, then after installing the game always run it once being online, and then deactivate Uplay/Steam - enable offline mode. Then you can and should make a copy of the SH3 catalog, and it's best to install a supermod and any other mods on the copy.
The UPLAY service controls the content of files in the game directory and corrupts all attempts by JSGME and independent mod installers.
Always treat the original SH3 directory as a copy you have no control over.
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