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You can disable / enable DLCs in gog.ini that can be found in game folder. Just open it in any text editor.
Sorry for the confusion, it will be fixed tomorrow.
IronArcturus: I've just noticed there is a new GOG patch for SR3. It says it's version Will that work with Saints Row 3 v2.0.0.4?
IronArcturus: Great! So the patch basically edits the gog.ini file?
Mostly yes - additionally it slightly modifies assets to remove some empty links from in-game menu (i.e. empty manual).