The Orphanage was used as a storage area for both the Light and Apokolips for all the meta teens who were trafficked and boom tubed from Earth. Some of the meta teens would be handed over to alien agents who would use them to cause turmoil amongst other planets. In order to remove evidence of their actions, the agents would initiate a meta kill code that would kill the meta teens.
The League infiltrate the station where they are confronted by the Furies. A battle breaks out with Granny Goodness ordering the base on shutdown. She opens the evacuation doors, blasting the league into space but they are saved by Guy Gardner.
With the league gone, the Orphanage boom tubed away with the meta-humans.