I don't think he's made up with Luke, at all. Things between him and Obi-wan have been...tense.

I do care about him. I don't want to stop trying-

[How many mornings has Ezra woken up and one of his first thoughts has been - He hasn't tried to kill me yet.

Or

He hadn't killed Obi-wan yet. Those futures don't have to exist here.

Ezra truly believes that they don't have to, not here, not in Trench. Yet neither has he seen commitment from Anakin, to not make those choices, here, either. So those possibilities hang like a danging executioner's sword.

Intellectually, Ezra is aware that's probably not a healthy environment for anyone to live in.

Eventually, Ezra says, weakly-]

It's difficult to live with someone who'd probably rather you simply disappear.