It is possible to integrate more than one selling channel from the same platform/source.

If you have multiple eBay stores you can integrate each store independently as a separate selling channel within Linnworks. In this case each selling channel will have the same source (EBAY), but they will each have a unique SubSource (EBAY0, EBAY1, etc)

Please refer to the documentation on Channel Integration for a detailed description on how to integrate each channel.