These are what we call the 'YMMV items.' Things that some people find in this work. We call them 'your mileage might vary' because not everyone sees these things in the same way. This starts discussions in the trope lists, a thing we don't want. Please use the discussion page if you'd like to discuss any of these items.
The Fifth Column leader and V doctor, Joshua. He can easily be seen as the most heroic out of all the others rebelling against the Vs because he has the most to lose. When it looked like he died in the finale, many fans wanted to drop the show entirely, but He Got Better by the end.
Lisa similarly is well-liked; surprising since she is usually in scenes with The Scrappy Tyler.
Family-Unfriendly Aesop: The people who mistrust the supposedly benevolent aliens who want to keep us all healthy for free (universal healthcare), give us a replenishable source of energy (removing our dependency on oil) and just generally want to make the world a better place while showing no signs of bastardry are right. However, this depends on interpretation. You could also argue that the entire series has a message that Humans are a collective of Properly Paranoid, mistrustful and dangerous sons-of-bitches if given half a chance.
This trope looks to be the remake's bread and butter. Not only do the humans have to worry about anyone being a Visitor, but the Visitors have to worry about anyone being part of the Resistance, even other Vs. It gets 'even worse in "It's Only The Beginning". You know that swine flu cure that everyone's been so desperate to get? There might be V chemicals in there that will eventually turn you into a mummified, desiccated corpse.And there's no way to tell if the chemicals are present or not.''
It goes even further downhill. If you try to raise a resistance against the V, not only will government agencies armed with alien tech hunt you down, but humans will too. Humans willing to kill. And you have no idea who they could be.
Tear Jerker: You can't help but feel for Agent Malik as she dies from torture. She even cries, which is a human emotion.
The Scrappy: Tyler. Even allowing for the fact he's a teenage boy, he's stupid and blinded by hormones. Doesn't help that he's dating Lisa (Laura Vandervoort). The feeling is largely based on his oh shiny sexy aliens expression mixed with the whiny "The Vs are awesome, you just don't understand me" thing he's got going. It certainly doesn't help that he's so much of an Unwitting Pawn that he's falling for plans that didn't even have him in mind, despite his own V girlfriend secretly trying to save him from what is surely an unpleasant death.
They Changed It, Now It Sucks: A number of fans of the original 1980s series complained that the lack of Nazi symbolism in the re-imagining ultimately leads it into losing the overall meaning behind the V's intentions.
They Wasted a Perfectly Good Plot: Tyler. He could have been an interesting character if the writers had used him properly. Instead, they make a character who is a 10-year-old boy in an almost 20-something man's body. He perpetuates the stereotype that young people are just destructive, self-absorbed, stupid, whiny lemmings. He served no actual purpose in the show at all. If he had been done properly, his death could have been shocking and horrible. Instead, it caused feelings of celebration, relief, a feeling of "You had this coming to you and you deserved it", and a feeling of "You reap what you sow." Yes, the writers made Tyler that bad. Such a terrible waste of potential.
And once again in the season 2 finale Mother's Day Lisa is imprisoned and her mother forces her to watch the fake Lisa have sex with Tyler and then kill him
Uncanny Valley: Intentional. The mothership-based Vs are presented through a glaringly obvious CG filter to make their skin appear too flawless and plasticky, and Visitors who are inexperienced with humans are a bit stiff and emotionless. The later becomes a plot point in the 6th episode, when Anna comes up with a test to use this emotionlessness to separate loyalists from Fifth Columnists.
What Do You Mean, It's Not Political?: The Visitors in this version have been interpreted as symbolizing Barack Obama. This isn't helped by the fact that the show's plot (the alien Visitors, who receive the devotion of the people, are secretly plotting to destroy the world) bears a lot of similarities to various right-wing fears about Obama — compare the Visitors' alien nature to the "birther" conspiracy. It also doesn't really help when the aliens provide "Universal Healthcare", and call it spreading hope... The writers have denied this, and claimed that the show is more about post-9/11 America than the current President.