Deployment codes are used to bring out the champion, when you kill him he drops the security pass so you can get the chest that is behind the door in the cabal ship

I've done it twice, and both times I first activated the first item at the Hull Breach, and killed the recon team and the champion Colossus. The champ have deployment codes to be activated at the Mausoleum, which triggered patrol events, and after completing the patrol events, I got the Security Pass for the door in the Mausoleum. Edit: the Command Beacon brings out the champion. Edit 2: the last Patrol event from the Deployment Codes involves killing a Cabal Leader. So it all depends on what you call a Champion.