Ranking the first three seasons

Personal enjoyment: Pusher - Vince Gilligan Ice - GM / JW Wetwired- Mat Beck Apocrypha - FS / CC  Little Green Men - GM / JW Irresistible - Chris Carter One Breath - Glen Morgan / James Wong Anasazi – CC Paper Clip - Chris Carter The Blessing Way - CC Sleepless - Howard Gordon Darkness Falls - CC Beyond the Sea - GM/JW EBE - GM / JW Grotesque - Howard Gordon Squeeze - GM / JW Tooms - GM / JW Ascension - Paul Brown Erlenmeyer Flask - CC Dod Kalm - HG End Game - Frank Spotnitz Die Hand Die Verletzt - GM / JW Duane Barry - CC The Host – CC War of the Coprophages - Darin Morgan Young At Heart - Scott Kaufer / Chris Carter Eve - Kenneth Biller / Chris Brancato Pilot – CC Jose Chung's 'From Outer Space" - Darin Morgan  DPO - Howard Gordon Conduit - Alex Gansa / Howard Gordon Deep Throat - CC Humbug - Darin Morgan Colony – CC Talitha Cumi - Chris Carter Aubrey - Sara B Charno Firewalker – HG Revelations - Kim Newton Nesei - CC/ HG/ FS 731 - FS The List - CC 2SHY - Jeffrey Vlaming Quagmire - Kim Newton  Avatar - Howard Gordon Syzygy - CC Roland - Chris Ruppenthal Born Again - AG / HG Ghost in the Machine - Alex Gansa / Howard Gordon The Walk - John Shiban Soft Light - Vince Gilligan Shadows - GM / JW Miracle Man - Howard Gordon / Chris Carter Lazarus - Alex Gansa / Howard Gordon Fallen Angel - Howard Gordon / Alex Gansa Shapes - Marilyn Osborn The Calusari - Sara B Charno Fresh Bones – HG Blood - GM / JW Our Town - Frank Spotnitz Red Museum - CC Excelsis Dei - Paul Brown Teso Dos Bichos - John Shiban Fearful Symmetry - Steve De Jarnatt F. Emasculata - CC /HG Hell Money - Jeff Vlaming Oubliette - Charles Craig Gender Bender - Larry Barber / Paul Barber Fire - CC Space - CC Jersey Devil - CC 3 - Chris Ruppenthal / GM / JW And Shippiness: Irresistible - CC Anasazi - CC One Breath - GM / JW Sleepless - HG Ice - GM / JW Dod Kalm - HG Beyond the Sea - GM/JW The Host - CC Little Green Men - GM / JW Tooms - GM/JW Firewalker - HG End Game - Frank Spotnitz EBE - GM / JW Darkness Falls - CC Squeeze - GM / JW Pilot - CC Deep Throat - CC Erlenmeyer Flask - CC Red Museum - CC Aubrey - Sara B Charno Die Hand Die Verletzt - GM / JW Humbug - Darin Morgan Colony - CC Our Town - Frank Spotnitz Jersey Devil - CC Conduit - Alex Gansa / Howard Gordon Fire - CC Eve - Kenneth Biller / Chris Brancato Young At Heart - Scott Kaufer / Chris Carter Shadows - GM / JW Roland - Chris Ruppenthal Miracle Man - Howard Gordon / Chris Carter Space - CC Fallen Angel - Howard Gordon / Alex Gansa Lazarus - Alex Gansa / Howard Gordon Gender Bender - Larry Barber / Paul Barber Duane Barry - CC Blood - GM / JW Excelsis Dei - Paul Brown Soft Light - Vince Gilligan the Calusari - Sara B Charno Ghost in the Machine - Alex Gansa / Howard Gordon Shapes - Marilyn Osborn Born Again - AG/HG Fearfull Symmetry - Steve De Jarnatt F.Emasculata - CC / HG Fresh Bones - HG 3 - Chris Ruppenthal / GM / JW