As someone who got their start loving Superheroes from the movies, and then made the leap to Comics, I'm not sure I'm qualified to make this list, based on the comics. Therefore, I have chosen to pick characters based on how well I know them in the movies, and then how much I like them in the comics. You'll notice some are strictly from the comics, as I do read them too! ;)
Recently, the Ragin' Cajun Mutant Remy LeBeau has become one of my favorite heroes. He has a charm that I can't help but appreciate, sarcasm, and I adore his appearances on TV, in the comics, and, yes, I even enjoyed him in the X-Men Movie that we all like to pretend never happened, X-Men Origins: Wolverine. He's one of the characters that I feel I can relate to, because he's so much more than his powers. He's quick witted, intelligent, and a smart-mouth. Not to mention, his dynamic with Rogue, both in the comics, and in the Uncanny X-Men TV Show I watched as a kid.
When I was younger, I loved Greek Mythology. We haven't seen much of Ares in any recent TV or movies, but I hope in the future we will (Fingers crossed for an appearance in Captain Marvel). Ares has been a part of the comics for a long time, but it is only in a pretty recent comic, released in 2009 that he caught my eye as a favorite, enough so to make my top five. *SPOILER ALERT* (I have warned you. Go read all 5 issues of the story I am about to discuss, then come back. Are you gone? I dunno. Let's continue)
In short, Ares leaves Olympus after the gods decide that he is too dangerous to call upon, and begins a new life on Earth. It is the modern day and Ares is working a peaceful job as a construction worker. He drives an armored vehicle and has a weapons locker in his basement (What a cool dad!). He teaches his son, Alex, that he doesn't need anyone but himself, and that fighting is okay. Well, his son gets kidnapped by these creepy things in white masks, and Ares takes down everyone and anyone in his way to get back to his son.
I wouldn't think I could like him, but I found that I did, in the end, enjoy his character development.
So yeah, I'm going kind of obvious on this one. Star-Lord was probably one of my favorite new Marvel heroes introduced this last year in the movies. I appreciate humor and wit, as well as a good action hero, and Star-Lord fit the bill for me. Guardians of the Galaxy was a movie I saw more than once in theaters and then purchased upon release. (I remember. I almost got killed in my local FYE store trying to buy it). For humor, I'd argue that Rocket Raccoon took that slot as front funny man in the movie, but Chris Pratt, who I would never have cast in a role like this, turned out to be a smash, and I loved him. I don't know much about Star-Lord from the comics, and I've only seen him briefly on one of the Marvel TV Shows, but he ranks in my favorites because his movie is still one of my favorite movies to date, period.
I went to see X-Men: Days of Future Past with my Dad a few days after it came out. My Dad used to love comics as a kid, (He asks me why Thor didn't make my list. I said because I like dry humor and fart jokes instead of bumbling oaf jokes...)
Back to Magneto. I love a hero who is bad because he has good intentions. Magneto is that way through and through. I've always preferred the Magneto that wanted what was best for mutants and who would stop at nothing to ensure that, not the pure evil Magneto that is probably easier to write, but harder to pull off. His backstory makes me feel for him, a young Jewish Mutant, sent to Auschwitz. Michael Fassbender's Magneto has always impressed me. He makes him the darker, focused Magneto that I adore. (I also love Sir Ian McKellan's Oldneato). I especially love the tension in the scene where Magneto walks into the security room, metal balls floating in hand, and then proceeds to knock out the security guard with them. He's just too cool. Nobody messes with Magneto! This is why he is #2 on the list.
#1 Captain America
For those of you who say that Cap is nonessential to the Avengers, and think he's a weak character, sit yo' pretty little self down and listen to me. Captain America was not my favorite in Phase 1, and he wasn't my favorite Avenger. In fact, it wasn't until I started reading his comics, then went out and saw Captain America: The Winter Solider that I decided that Cap was my favorite hero of all time.
Steve Rogers wanted to serve his country, and couldn't because he was all skinny and breakable. So determined was he to serve that he took part in an experiment which could have killed him. He is selfless, kind and caring.
After gaining respect for who he had to become through the course of the Winter Soldier, I realized how important Cap was, going back to watch the first movie, and for the billionth time watching the Avengers. I grew to care about what happened to Steve Rogers, and stood beside him till the end of the line.
Captain America is now my top hero, and I adore him. I loved the Winter Soldier as a movie, and then, when I read the comic, loved it even more. Captain America is a pivotal player in both the Marvel Civil War, and the Infinity War story line. He has made appearances in the Ultimates, Age of Ultron, and Avengers storylines in the comics. This is why Cap is at the top of my list.