First Aid is erroneously colored as Swerve in the first panel on page 11.
Skids is drawn with no left hand on page 15.
Rewind appears to be flying in data slug mode at the top of page 18.[1]
On the same page, Drift's entire body save for his head is colored entirely gray.
Cyclonus sports green eyes on pages 20 and 21.
Swerve appears on page 24 on the Metrotitan's face despite the fact that he's supposed to be talking to Ore on the Lost Light.
Speaking of Swerve's appearance on page 24, the speech bubbles in that panel appear to be attributed to the wrong characters. Rodimus calls the team Crusadercons, a term Swerve came up with in issue 2 of MTMTE, and says that they're going on a Brain-Quest, which matches up with Swerve's love of quests. Swerve responds to the first of Rodimus's speech bubbles with hesitation.
Tailgate is shown to be in the group that gets teleported to Theophany's surface, and is seen standing with Swerve on the Metrotitan's face. However, he's later shown to be still on the Lost Light with Ultra Magnus when the Metrotitan teleports everyone away.
Blaster is erroneously colored pink with a purple head on page 31.
Ratchet's hands are colored red on page 35.
Transformers references
Nanocons were first mentioned in "Zero Point", where it was left ambiguous whether or not they really existed or were just figments of Roadbuster's imagination.
During Cyclonus's story about Primus and the Guiding Hand, he stops to ask Rewind a question when he's about to name Primus's "opposite." He never does give the name, but we can guess who it might be; a certain chaos-bringer is keeping up his track record of not being mentioned by name in IDW continuity thus far.
Real-world references
Drift's lengthy list of the virtues of Crystal City's denizens, and inability to give a similar list for his own crew, tailing off with "...and us with our... with our...", leading to his crewmates' put down is very similar to an exchange in the UK sci-fi comedy Red Dwarf VI episode "Legion".
Crew manifest
Ore briefly returns to life before being teleported away with the Metrotitan.
Although Hyperion and Polaris were the only casualties, First Aid confirms that several Autobot sucked out of the ship in How to Say Goodbye and Mean It are off-line and in the medical bay.
Covers (3)
Cover A: Hot Rod & co. look at the collapsed Metrotitan, by Tim Seeley
Cover B: A fantail of pictures showing the cast with Crystal City at the centre, by Alex Milne
Cover RI: Ultra Magnus, Rodimus, Ratchet and half a Metrotitan, linking with the Robots in Disguise Annual 2012 cover, by Jimbo Salgado