In Conga Batch 8.13 the user has the option of choosing between a ZIP folder or a consolidated PDF when sending output to Content.

To utilize this feature, the administrator needs to manually add the field, "Consolidated PDF Output File", to the Conga Batch Layout. It's suggested that it's added to the Schedule section since that is what it modifies.

See Saving a consolidated PDF output to a Content Library using Conga Batch 8 for more information.