- Alas, Poor Villain: Most of the villains have some sympathetic quality to them that makes their ultimate demise come across as more sad and futile than triumphant. Even Dr. Carcharria's death is more of a pathetic end to a severely deranged person, rather than a victory over a powerful enemy. She even admits with her final words that Ruby might have been right.
- Bittersweet Ending: The team survives, reverses the Apex State, and defeates Dr. Carcharria for good. However, Alexis is dead and the future is pretty uncertain. Ultimately, Ruby chooses to remain hopeful and let life come as it may.
- Creepy Awesome: Elise is terrifying when she goes into berserk mode, but she's also one of the most entertaining characters.
- Harsher in Hindsight: The ending of Ruby's World had Ruby adopt a four-year-old test subject named Rafa, promising she would take care of him. Turns out that inbetween that strip and Ruby Nation, he died from complications of his various surgeries. Also qualifies as a Happy Ending Override, despite the end of Ruby's World being bittersweet at the very best.
- Iron Woobie: Ruby puts up with a lot of grief and still manages to hold on to her ideals.
- Jerkass Woobie: Elise comes across as ungrateful and contrary, but given everything she's been put through, it's understandable.
- Squick: Some of the Body Horror in this comic, especially related to the posthumans, can be a bit gruesome to think about and there are some rather messy deaths. In-universe, Ruby's reaction to Dr. Carcharria saying Ruby's mother was the only person who treated her like a woman. This, coming from someone who looks like a child.
YMMV / Ruby Nation