Yup, Dan was just knocked out. Malcolm needed him alive to take the fall.
And Lucifer has finally figured out what we guessed weeks ago -- he's not mortal except when he's with Chloe. Although it seems he's vulnerable to injury by anyone, himself included, as long as he's in her company. Which seems a bit inconsistent. We know his persuasion power doesn't work on her, but we also know he can use it on others when she's around. So it's not like she's his kryptonite, shutting down his supernatural abilities.
The "Lucifer decides to be charitable" bit was typically broad, but kind of fun. I liked how Chloe and Lucifer independently solved the mystery in their own separate ways. The thing with Maze and Amenadiel is weird, though. I guess, I dunno, maybe he feels guilty about taking out a hit on Lucy and he's acting out?