Anvilicious: The Christian aspect of the game. It ultimately has no impact on the plot, but every game in the trilogy has a bible or bible quotes shoehorned into it.
The Chris Carter Effect: Each successive game does nothing but make the plot even more complicated than it has to be.
Crowning Music of Awesome: It's one of the strong points of the trilogy. David Orr made the main theme and intro music for the games, and its BEAUTIFUL. Also, the music in the shotgun duel in Escape is very good.
Ensemble Darkhorse: Dan McNeely. Being voiced by Edwyn Tiong played a huge part in this of course.
How did Dialla become a police detective in the first place if she's the leader of Armor Gamsees? Likely, the intention was that Mickey quit the gang and took her with him, after which she lost her memory, but the story never tells how she became a detective afterwards. A newspaper does claim she's one, but it's never specified how.
McNeely's amnesia screws up his own operation in Trapped, why does the rest of the gang still follow him after that? Hell, why accept a guy who's known to suffer from amnesia as the leader in the first place?
When Mickey's body is found with his jacket back on it in Escape, it has his large Bible. Why didn't Dialla notice it in Pursuit when she was looting his body? Furthermore, why didn't it protect him from getting shot like it did with Dan earlier?
The blatant railroading in Escape leads to this: For some reason, McNeely put the keycard renewal inside a cell, and for some reason, Jason objects if you try to go inside. The sad thing is that both of these could have been avoided without changing the story simply by having Dialla refuse to leave without getting her watch back first.
Dan McNeely being a villain the entire time in Trapped.
Dialla being the leader of Armor Gamsees.
The immortality serum in Escape.
So Bad, It's Good: Depending on who you ask, the game has terrible, illogical puzzles; a plot poorly held together; bizarre interfaces that change from game to game; over the top voice acting; Christian references shoehorned in everywhere...and yet it makes it work. Part of it comes from the character design, the relationships between the main characters, the Narm Charm mentioned above, or also...
Took the Bad Film Seriously: The voice actors for Dialla and McNeely are both genuinely good. It seems somewhat out of place in the context of a game so illogical. Then again, it is a flash production so money isn't the issue and seems like they're doing it as a hobby.