Alternate Character Interpretation: Is Clive a tortured soul who did what he did because he saw it as the only solution, or an entitled brat who wanted to see the world suffer the same cruel fate that he did just so he could feel better about it?
Inferred Holocaust: A giant mecha bursts through an underground cavern and high above London, then proceeds to shoot at will on the city. Thousands presumably die. Then the same mecha falls through the hole it created and explodes in mid-air, completely incinerating the fake London underneath it, but apparently having no further effect on the city above, despite it actually being closer.
It could also be inferred that the attack on London cripples the UK as a whole and leads to more chaos around the world. Since most of the world just saw a quarter of London get obliterated by a WMD, it's entirely possible that other superpowers (Like the Soviet Union) took inspiration from the attack and made similar weapons of their own...
That One Puzzle: There is a puzzle where you have to calculate the number of passengers on a bus, with the catch that you have to include the one telling you the puzzle. Fair enough. However, the one telling you is the conductor, while you also have to include the driver. This is not at all intuitive for people who have never driven on a double decker bus, not to mention that bus driver and bus conductor would seem to be the same thing. A different version changes conductor to tour guide for this reason.
Unintentionally Unsympathetic: The Big BadFuture Luke (or to be more accurate, Clive Dove) is this. While his backstory certainly is a tragedy, many people find his actions not to be justified. Despite knowing who hurt him all these years ago, rather than simply plotting revenge against that person, he decides to drag people who have done nothing to him into this conflict for no good reason. He not only betrays his partner, but his goal results in crossing the Moral Event Horizon by attempting to destroy London and killing an unidentified number of people, unless the buildings he destroyed were conveniently empty. That said, it's somewhat downplayed despite this, due to everyone's dislike of The Scrappywho later ends up a Karma Houdini.