1. Daredevil
For me, starting from Bendis through now has been fantastic consistantly issue to issue. I've not read a run that was this good this long without fail in a very very long time, potentially ever. It's suffered a bit with Shadowland but even that is better than most stuff these days. For me it peaked during Brubaker's Fear arc, but still... wow!
2. Y The Last Man
This is the first independant title to really capture my attention. I couldn't stop reading it once I started and the final issues literally brought tears to my eyes, and that just doesn't happen. It's only happened maybe 4 times in the 19 years since I started reading comics. Amazing run!
3. New Mutants/Academy X/New X-Men/Young X-Men
This was a great run. Student X-Books are old news but something about this generation just drew me in. New Mutants introduced the core team while Academy X introduced the Hellions and other students that were mostly background. It also brought in some of Morrison's students. New X-Men merged them all into a great team and eventually brought in others like Anole and Pixie. Marvel editorial then screwed up the great book with a relaunch trying to get more readers and ended up killing the book with Young X-Men, which was still decent but not fantastic. I'm glad these kids are still kicking (well, a lot of them aren't, but the ones that are are still fairly prominant). I'd like to see another attempt at a team book for these guys but we'll see. I think there's a lot of future for this generation of X-Men.
4. Annihilation
I never cared about cosmic comics until this. In fact, I picked up the prologue, thought it was dumb and started to skip out on this. In fact, on a wild whim I opted to go back and pick up the prologue again and all the minis just prior to the core Annihilation mini began and that was the best comics decision I ever made. The build up did suffer a bit to a non-cosmic fan like me but it all paid of in the end and gave me one of the most fulfilling and fantastic comics I've ever read. And it kickstarted the new and wonderful era of cosmic marvel that we know today.
5. Runaways (Vaughan's run)
I don't remember exactlly when this started but I want to say it was early 00's and not late 90's. I'm talking about Brian K. Vaughn's entire run, so all of volume 1 and volume 2 up to I think issue 24 or 25 when he left. That was a solid run of fun times, emotional roller coasters, and fantastic art... seriously, where did this artist go? He was awesome! And they say you can never create a new book with interesting new characters and I almost believe that if not for this book. All new characters and they were all equally fantastic! Alex, Gert, Nico, Chase... man how I love these guys. Unfortuntely Whedon came in and lost me within a couple issues and I hear it didn't get any better after that. So sad.
6. Umbrella Academy (Vol. 1 & 2)
Both volumes were fantastic and I can't wait for the long awaited may come before Christ comes back volume 3. It was an interesting take on a comicbook that I've not read before and, particularly vol. 1, amazed me. Vol. 2 wasn't quite as good but still enjoyable. Thank God for Half Priced Books or I'd have never even tried this series out.
7. Nova
I've always liked Nova due to his guest appearance in Amazing Spider-Man 351 and 352, some of the first comics I ever owned. I liked him in New Warriors due to this but he was a lost character by the time Annihilation came out. After that I was excited but didn't expect much following it. This series came and corrected my concerns by being consistantly fantastic from beginning to end. As with most of the cosmic line I feel like it was reaching for plot by the time Realm of Kings rolled around, but even that was still entertaining. I miss this book more than any other right now.
8. Green Lantern
From Rebirth to now this has been a great time for Green Lantern. I wasn't a DC fan at all when Rebirth hit and was surprised when I was forced to read and enjoyed Identity Crisis. My bro-in-law then forced me to read Rebirth as well and I really enjoyed it but didn't continue. Then I heard great things about Sinestro Corps War so I got caught up and haven't looked back. I thought Blackest Night was great and even though it's kinda eased up a bit the past few months I'm still enjoying it.
9. Ultimates I & II
From plot to art these were great. It was a little too anti-Bush in volume II but it was still really good. So much waisted once Loeb came around. It was sad.
10. Young Avengers
The 12 issues that started this series out were great and it's so sad the amount of potential that Marvel's wasted here. Children's Crusade is definately a good read so far but there's just so much that's happened between issue 12 and the current mini. I'm hoping Children's Crusade resparks the book and it gets regular again.
Honorable mention goes to Planetary and Final Crisis
Planetary