There wasn't enough of Mooney to be uninterested in - and, yeah, the ending was interesting. I find the Riddler story line pretty interesting in general but I feel like they introduce it too often for how slow it's moving or move it too slowly for how often it's introduced. As far as what makes (I think they spell it with a 'y') Nygma become the Riddler, I was thinking about that more than anything else (other than Morena Baccarin) after this episode. I initially was thinking he was maybe the master-villain-to-be acting as a wolf in sheep's clothing in the GCPD but I quickly realized that, at this point, he's actually honestly a "good" guy but I think he's just so totally weird and socially inept that he'll have increasingly bad experiences that result in his slipping into villainy. That happened tonight. While the coroner was corrupt and incompetent, Nygma did frame him for a crime he didn't commit. Which makes it Nygma's first crime (probably). And speaking of, what caused it - when he was doing the unofficial autopsy and the coroner and captain walked in and he threw up his hands and said, "What was I thinking?" and smacked himself on the forehead, leaving blood smeared on his forehead I burst out laughing. He's a weird dude.
I do think the Penguin storyline is yet another example of a problem in this show - too many people come too close to dying too many times, especially when we know they "can't" unless the show goes WAY the hell off canon. So it wouldn't have much effect anyway and gets really lame given the repetition. But it did give Maroni a chance to be great in his scenes. "That's a good secret. I've got a good secret, too." (Actually, this episode was Butchless. I still figure he pops back up, though - another guy with nine lives.)
Speaking of, I wish they'd do more with Kyle. She had a couple scenes and that's all good but she could have more actual storyline and decisive actions vs. just popping in and popping out.
Anyway - pretty decent episode but largely just marking time. The main "phobia" story wasn't bad (though it seems like it could have been more) and they at least seem to have firmly written in Baccarin's character now.