Him and Nucky still have beef because he took the fall for Nucky and he's treated him pretty second hand since.
IMO that changes some post-ambush.
Que? They don't get along because Eli tried to have him killed and he betrayed him.
But I think with as much shite going on right now, I think Nucky won't have a choice but to let Eli back into the game because he's going to find out that Mickey was the one that sent the truck through Tarbor Heights anyway.
With "the talk" last night, I fully expect Eli to be a major character again. I think his "let me earn it" last night was his way of trying to apologize.
Now that he saw what went down with the ambush, Nucky's hands are tied. Will be interesting to see the interaction between the two and how Nucky will treat him after everything that went down with the Commodore.