- Alternate Character Interpretation: Shockwave believes that he was never the benevolent senator he was before the Shadowplay and that he was always a manipulator. Whether that's true and he was Evil All Along or just a consequence of the Shadowplay coloring his beliefs is up to the reader. Shockwave himself admits to having trouble understanding the "true" him with all of the identities he's taken over the millennia.
- Base-Breaking Character: Slide & Pyra Magna for their attitudes against Optimus. While many could see where the two were coming from, others just found their overall presence to be unpleasant.
- Broken Base: Like a lot of IDW's stories, this series is very divided on how fans feel about it. Some think that it's an appropriate ending to the IDW timeline, others feel that the writing wasn't handled very well.
- Unicron's backstory resembling more of his G1 cartoon counterpart as a science experiment rather than the more well-known interpretation of him as a dark god from before the beginning of time. As with the argument since the first retcon involving Primus, fans are divided on whether or not this was a good plot device.
- Unicron being defeated with Optimus hugging the monster planet's creator's spirit. Some felt it was a good ending and a neat subversion to the constant angst, others felt that it was anticlimactic and worthy of mockery.
- Catharsis Factor: After 13 years of dodging and escaping death, and inflicting it everywhere they go, Bludgeon and Monstructor are finally put down at the end of "Ceremony".
- Continuity Lockout: Much of what goes on in the story is very dependent on past stories. As such, any reader who hasn't seen any of IDW's previous stories and/or has only seen the TV shows beforehand will likely be confused as to why things are presented the way they are.
- Designated Hero: Again, Slide & Pyra Magna. While the two did participate in trying to stop Unicron, there were plenty of readers who felt that the focus on the two of them was unwarranted and unearned due to their unpleasant attitudes and questionable priorities. While Slide does get called out for hers in-story, Pyra Magna isn't, which upset many fans.
- They Changed It, Now It Sucks!: Many fans did not react too kindly to the changes made to longtime aspects of certain characters, mainly the Maximals serving as cannon fodder minions for Unicron rather than a heroic faction, as well as Unicron being a mostly-silent villain without the arrogance of many of his other versions on display.
- They Wasted a Perfectly Good Character: As usual, leaving the Jem comics out of it— seeing their reaction to everything and anything they might've done to help could've been cool.
- What an Idiot!: Slide spends more time focusing on her beef with Optimus than she does in trying to help stop Unicron from destroying everything.
YMMV / The Transformers: Unicron