*cracks knuckles*
Create a new notepad file kiddies, I'ma about to give you a megaton of info-
Agents of Atlas:
Various series over the past few years, but whenever they get an ongoing it sadly gets canceled. Some good stories in it, first book is written by Jeff Parker.
Alias by Brian Michael Bendis
Marvel's Cosmic series: Reading order is as follows:
1- Annihilation
2- Annihilation Conquest
3- Guardians of the Galaxy
4- War of Kings
5- Realm of kings
6- Thanos Imperative
7- Annihilators
...off the top of my head at least
Ares:
2 mini series, one by Mike Oeming and the other by Kireon Gillen.
Avengers:
Bendis has been the main author on the Avengers books since the early-mid 2000s, and his run is either love it or hate it. You could check out any Avengers series he wrote during the past 10 or so years, but also check out Avengers stories by the following authors:
Kurt Busiek
Dan Slott
Young Avengers is also pretty good.
Black Panther:
Christopher Priest wrote THE essential and perhaps best Black Panther series ever. Sadly it is not fully collected in TPB so you'll want to hunt for single issues for it. It'll be worth it however...at least IMHO.
Jason Aaron's short run collected in Secret Invasion: Black Panther is also good.
Captain America:
http://www.neogaf.com/forum/showthread.php?t=437559
Captain Britain & MI13:
Written by Paul Cornell one of my fav. writers, also about the only good book that has Blade in it.
Captain Marvel by Peter David
ClanDestine by Alan Davis
Criminal by Ed Brubaker (It's published by a Marvel subsidiary right?)
Daredevil:
Read books by the following writers in the following order-
1- Frank Millar
2- Bendis
3- Ed Brubaker
4- Mark Waid
Or better yet just get into Waid's Daredevil now, it's fantastic and entertaining.
Dr. Strange: Read the series written by JMS and Brian Vaughan.
EXiles: Read up until the last book Bedard wrote, then read Point of no return.
Fantastic Four:
Stan Lee and Jack Kirby's original series is a must read if you're interested in knowing about the origin and history of the Marvel U.
For more recent series, the following writers have had some good stuff:
Mark Waid
JMS
Mark Millar
Johnathan Hickman
Grant Morrison's 1234 mini is also pretty good.
Great Lakes Disassembled by Dan Slott
Hercules by Greg Pak
Hulk: Anything by Peter David (10 years!) and Greg Pak
Red Hulk: Start with Scorched Earth TPB by Jeff Parker, Red Hulk becomes more tolerable when he starts writing it.
Howard the Duck: Just about anything Steve Gerber wrote.
Inhumans by Paul Jenkins and (epic art by) Jae Lee
Immortal Iron Fist by Ed Brubaker and Matt Fraction
Kick-ass by Mark Miller
Man-Thing by Steve Gerber (err and any other writer that wrote the character's series?)
Marvel 1985 by Mark Miller
Marvel Zombies 3-5 by Fred van Lente (Machineman being awesome~)
Anyone got any Moon Knight recommendations? All I got is the mid 2000 series by Charlie Huston and Greg Hurwitz.
Ms. Marvel by Brian Reed
Nextwave: Agents of HATE:
http://www.youtube.com/watch?v=Xuosmf1_mKs
Marvel Boy by Grant Morrison
Omega the Unknown
Power Pack miniseries by Gurihiru
Punisher by Garth Ennis, Jason Aaron and Greg Rucka.
Runaways by Brian K. Vaughan
The Sentry by Paul Jenkins
She-Hulk by Dan Slott.
SHIELD by Johnathan Hickman
Spiderman: Original series by Stan Lee and Steve Ditko if you want to see how the character started out. For a more modern/recent run, JMS' Amazing Spiderman run has been great for the most part (just stop before OMD). Avoid anything from the 90s.
The Hood by Brian K. Vaughan
The Irredeemable Antman by Robert Kirkman.
The Twelve by JMS.
Thor:
http://www.neogaf.com/forum/showthread.php?t=429046
Thunderbolts: Various writers over the years but much of it has been great so far. Good starting point for the current/modern series would be Warren Ellis' run.
X-Men:
Too many to list, but off the top of my head:
Grant Morrison's X-Men followed by Joss Whedon's Astonishing X-Men
Ultimate series:
DO NOT READ ANYTHING BY JEPH LOEB!
Mark Miller's Ultimates and Ultimate Avengers
Bendis' Ultimate Spiderman (among Bendis' best works IMHO)
Warren Ellis' Ultimate Trilogy
Ultimate Fantastic Four
...yeah that's it off the top of my head, you're welcome GAF <3