Quote Originally Posted by Buffalobiian
Ah, but one of the key aspects is already gone: alternate eyes.

The fact that we see him with both strongly suggests that he's recovered from his condition. Moreover, he did suffer a head injury in S1. But I'm all for hoping Hallelujah comes back. By far my favourite character since Lockon.
In the OP of S2 you can see Allelujah with 2 eye colors, so that suggests Hallelujah is back as well.