Biggest surprise when you read the book...

[Saph]

I think he was rather more concerned that they were identifying with the emotionally stunted violent little fascist who is completely incapable of relating to humanity.

But presumably he found readers identifying with the mass-murdering psychopathic megalomaniac to be just fine.

I'm not really interested in getting into the the "should you help cover up nuking a city with an alien death squid" argument. I'm saying that if those are your only two choices , the fact that a significant proportion of readers choose to be on Team Anti-Death-Squid should be about as surprising as the sun coming up. The fact that Alan Moore apparently couldn't understand that is kind of revealing IMO.