Alright, as requested, here's a brief list of who's on what time, followed by an updated list of who's traveling with who. The next chapter's coming soon. I guess I'll add these updates when there's enough changes.
The X-Men (Xavier Institute, location mobile [currently in New Zealand])
Magneto (Erik Magnus Lehnsherr)- Magneto is no longer bent on world domination, but on the destruction of Apocalypse and the preservation of Xavier's dream.
Scarlet Witch (Wanda Lehnsherr)- Loyal to her father, her powers have not yet developed to the extent that we know them.
Havok (Alex Summers)- Rescued from the orphanage by Magneto, he is in his debt. Havok is much like our version of Cyclops, only more naive.
Converse (Jean Grey)- Jean's mental powers are less developed because Xavier never helped her. As a result, she is much like our version of Rogue. Strangely, she is really Mastermind's daughter, and Toad's sister, though Mastermind abandoned them. She was adopted by the childless Grey family, who has been murdered by Apocalypse's forces.
Forge (real name unknown)- Forge was never locked away in the Middleverse, so he is an older man. A technical genius and mentor to the group. Most of his parts are cybernetic.
Stalwart (Freddy Dukes)- Fred was more easily accepted at school, and as a result is smarter and more confident. He enjoys the love and company of Jean.
Ariel (Kate Pryde)- Having seen Apocalypse's work firsthand when her friend Lance was recruited, she is paranoid and a little out-of-touch.
Brotherhood of Mutants (Brotherhood of Bayville Boarding House, Bayville, New York)
Mystique (Raven Darkholme)- Having never been under Magneto's control, Mystique is a more understanding person, though she's clearly no goody-goody.
Note: The Darkholme siblings do not have proper codenames.
Scott Darkholme- Having spent most of his life in an orphanage, Scott is extremely bitter. Much like our Lance.
Kurt Darkholme- Kurt never endured the persecution our version faced, as his furry mutation hasn't manifested and Mystique has kept watch over him. The most loyal member of the Brotherhood, and most dedicated to the cause, though he is still a prankster of sorts.
Todd "Toad" Darkholme- Faced much trouble due to his mutation being revealed early. He is angry and hateful, but hides this behind his sense of humor. Hates his real sister Jean as well as their father Mastermind, who abandoned them. Adopted by Mystique.
Marie "Rogue" Darkholme- Mystique's daughter, no longer a goth. She is not in control of her powers, but she doesn't mind them so much. More sarcastic than depressive. Her nickname has no real basis, but it just doesn't feel right if she's not called Rogue.
Apocalypse and the Horsemen (Numerous Bases, including Mexico, Germany, and others to be revealed)
Apocalypse (En Sabah Nur)- Ancient mutant who seeks to rid the world of humankind before going forth with a greater plan that poses a threat to mutants themselves. As of the time of this list, Apocalypse hasn't officially appeared on the show, so he is loosely based on the canonical version.
Death (Warren Worthington)- Archangel is grim and serious. He cares only about serving Apocalypse. He is the only member of the Horsemen allowed to speak, and serves as Apocalypse's messenger.
Pestilence (Robert Drake)- Iceman is grim and serious. He cares only about serving Apocalypse.
Famine (Lance Alvers)- Avalanche is grim and serious. He cares only about serving Apocalypse.
War (Ororo Monroe)- Storm is grim and serious. She only cares about serving Apocalypse.
Other Forces:
Beast (Henry McCoy)- Beast is Apocalypse's chief scientist. He has his usual wit, but it seems a little sadistic.
Colossus (Piotr Rasputin)- Colossus is grim and serious. He cares only about serving Apocalypse... at least, that's how it seems.
Magma (Amara Aquila)- Magma is grim and serious. She cares only about serving Apocalypse.
Sunspot (Roberto Da Costa)- Sunspot is grim and serious. He cares only about serving Apocalypse.
Berzerker (Ray Crisp)- Berzerker is grim and serious. He cares only about serving Apocalypse.
Mesmero (real name unknown)- Mesmero is Apocalypse's most loyal non-Horseman servant. Mesmero is a mutant slaver who hypnotizes mutants into working for Apocalypse. Sometimes, Apocalypse tells him not to take full control...
Pure Blood Movement (Main base in Southern Australia, other bases around the world, including India and a Sentinel Factory in Canada)
General Bolivar Trask- Trask leads the anti-mutant war. He is the only human ever to have survived an encounter with Apocalypse, though he sometimes wonders if it was really his own skill that saved him, or something else. Trask is more afraid of mutants than anything else.
Colonel Duncan Matthews- An officer in Trask's army, overseeing the Sentinel factory.
Arcade (Webber Torque)- A civilian working under Trask in programming.
X-Force (no set base of operations)
Wolverine (Jack Logan)- A tortured mutant opposed to Trask.
Mastermind (Jason Wyngarde)- Wolverine's partner, who is also opposed to Trask. Mastermind abandoned his children, Jean and Todd, for reasons unknown.
Quicksilver (Pietro Lehnsherr)- Most loyal to Wolverine's cause, mostly to spite his father, Magneto. Wolverine's recognized right-hand man. He has a chip on his shoulder, but he's still very much like our Pietro.
Gambit (Remy LeBeau)- Dedicated to Wolverine's cause. Loyal, but not fanatical. Not much different from our Gambit.
Cannonball (Samuel Guthrie)- Loyal to Wolverine's cause. Cannonball is not very smart.
Wolfsbane (Rahne Sinclar)- Loyal to Wolverine's cause. Rahne really likes Pietro, but he doesn't seem to realize it.
The street urchins (no team name or real base... they just sort of wander around)
Johnny "Pyro" Allerdyce- A... rather happy guy. He doesn't seem to mind pain, at all. In fact, his friends are beginning to think he enjoys it. The unofficial leader of the gang. He's and Tabby are... sort of going out. It's more of a physical relationship.
Tabitha "Tabby" Smith- Wild party girl... actually, she's pretty much the same as our version. Tabby's sleeping with Pyro, but their relationship really doesn't go beyond that.
Evan Daniels- Originally lived with his aunt Ororo when his parents died. When she was recruited, he met Pyro and Tabby, and he's been hanging out with them since. He wants to get Apocalypse for taking his aunt away from him, but he realizes that he's too weak and really can't do much about it. He's more bitter than our version, but hides it. Likes to goof off with his friends.
Others (unaffiliated)
Jamie Madrox- Homeless kid who steals to get by. He'd make friends, but he's a sadistic little bastard who doesn't seem to understand that nobody else thinks the way he does.
Sabretooth (Victor Creed)- Shh! It's a secret.
Destiny (Irene Adler)- Shh! It's a secret.
Characters who probably won't show up (hey, I'm still writing, but I don't really see much of a need for these characters)
Jubilee (Jubilation Lee)
Taryn
Paul
Nick Fury (will be mentioned, along with Captain America)
Okay, update time.
Xavier Institute, location mobile [currently in New Zealand]
Magneto (Erik Magnus Lehnsherr)
Forge (real name unknown)
Mystique (Raven Darkholme)
Baby Kevin- A child from Tibet and sole survivor of an attack by the Horsemen. An enhanced mutant, even at his age.
Apocalypse's German Base
Apocalypse (En Sabah Nur)
Beast
Mastermind- Revealed to be a mutant slaver working for Apocalypse. Mastermind is not under hypnosis, but he seems to want his children to work for Apocalypse, too.
Wolverine- Revealed to be a mutant slaver working for Apocalypse. Wolverine is not under hypnosis, so it is unknown why he is doing this.
Mesmero
Kurt Darkholme- Captured by Mesmero and brought to Apocalypse. Now the subject of Beast's experiment.
Todd "Toad" Darkholme- Captured by Mesmero and brought to Apocalypse.
Marie "Rogue" Darkholme- Captured by Mesmero and brought to Apocalypse.
Converse (Jean Grey)- Captured by Mesmero and brought to Apocalypse.
Stalwart (Freddy Dukes)- Captured by Mesmero and brought to Apocalypse.
Ariel (Kate Pryde)- Captured by Mesmero and brought to Apocalypse.
Currently on the move:
Gambit (Remy LeBeau)
Cannonball (Samuel Guthrie)
Wolfsbane (Rahne Sinclar)
Havok (Alex Summers)- Escaped from Apocalypse's base, going with the others to get help.
The street urchins
Pyro- Lost his hand... actually, I don't think I specified which one. I guess his right.
Tabby
Evan
Scarlet Witch (Wanda Lehnsherr)- Separated from Scott and the X-Men, traveling with the street urchins.
Under Apocalypse's control, location unknown
Death (Archangel)
Pestilence (Iceman)- Iceman was killed by Pyro. A replacement has been not yet been found.
Famine (Avalanche)
War (Storm)
Jamie Madrox- Taken by the Horsemen to serve Apocalypse.
Scott Darkholme- Taken by the Horsemen.
Quicksilver (Pietro Lehnsherr)- Taken by the Horsemen.
Other:
Sabretooth (Victor Creed)- First appearance next chapter
The X-Men (Xavier Institute, location mobile [currently in New Zealand])
Magneto (Erik Magnus Lehnsherr)- Magneto is no longer bent on world domination, but on the destruction of Apocalypse and the preservation of Xavier's dream.
Scarlet Witch (Wanda Lehnsherr)- Loyal to her father, her powers have not yet developed to the extent that we know them.
Havok (Alex Summers)- Rescued from the orphanage by Magneto, he is in his debt. Havok is much like our version of Cyclops, only more naive.
Converse (Jean Grey)- Jean's mental powers are less developed because Xavier never helped her. As a result, she is much like our version of Rogue. Strangely, she is really Mastermind's daughter, and Toad's sister, though Mastermind abandoned them. She was adopted by the childless Grey family, who has been murdered by Apocalypse's forces.
Forge (real name unknown)- Forge was never locked away in the Middleverse, so he is an older man. A technical genius and mentor to the group. Most of his parts are cybernetic.
Stalwart (Freddy Dukes)- Fred was more easily accepted at school, and as a result is smarter and more confident. He enjoys the love and company of Jean.
Ariel (Kate Pryde)- Having seen Apocalypse's work firsthand when her friend Lance was recruited, she is paranoid and a little out-of-touch.
Brotherhood of Mutants (Brotherhood of Bayville Boarding House, Bayville, New York)
Mystique (Raven Darkholme)- Having never been under Magneto's control, Mystique is a more understanding person, though she's clearly no goody-goody.
Note: The Darkholme siblings do not have proper codenames.
Scott Darkholme- Having spent most of his life in an orphanage, Scott is extremely bitter. Much like our Lance.
Kurt Darkholme- Kurt never endured the persecution our version faced, as his furry mutation hasn't manifested and Mystique has kept watch over him. The most loyal member of the Brotherhood, and most dedicated to the cause, though he is still a prankster of sorts.
Todd "Toad" Darkholme- Faced much trouble due to his mutation being revealed early. He is angry and hateful, but hides this behind his sense of humor. Hates his real sister Jean as well as their father Mastermind, who abandoned them. Adopted by Mystique.
Marie "Rogue" Darkholme- Mystique's daughter, no longer a goth. She is not in control of her powers, but she doesn't mind them so much. More sarcastic than depressive. Her nickname has no real basis, but it just doesn't feel right if she's not called Rogue.
Apocalypse and the Horsemen (Numerous Bases, including Mexico, Germany, and others to be revealed)
Apocalypse (En Sabah Nur)- Ancient mutant who seeks to rid the world of humankind before going forth with a greater plan that poses a threat to mutants themselves. As of the time of this list, Apocalypse hasn't officially appeared on the show, so he is loosely based on the canonical version.
Death (Warren Worthington)- Archangel is grim and serious. He cares only about serving Apocalypse. He is the only member of the Horsemen allowed to speak, and serves as Apocalypse's messenger.
Pestilence (Robert Drake)- Iceman is grim and serious. He cares only about serving Apocalypse.
Famine (Lance Alvers)- Avalanche is grim and serious. He cares only about serving Apocalypse.
War (Ororo Monroe)- Storm is grim and serious. She only cares about serving Apocalypse.
Other Forces:
Beast (Henry McCoy)- Beast is Apocalypse's chief scientist. He has his usual wit, but it seems a little sadistic.
Colossus (Piotr Rasputin)- Colossus is grim and serious. He cares only about serving Apocalypse... at least, that's how it seems.
Magma (Amara Aquila)- Magma is grim and serious. She cares only about serving Apocalypse.
Sunspot (Roberto Da Costa)- Sunspot is grim and serious. He cares only about serving Apocalypse.
Berzerker (Ray Crisp)- Berzerker is grim and serious. He cares only about serving Apocalypse.
Mesmero (real name unknown)- Mesmero is Apocalypse's most loyal non-Horseman servant. Mesmero is a mutant slaver who hypnotizes mutants into working for Apocalypse. Sometimes, Apocalypse tells him not to take full control...
Pure Blood Movement (Main base in Southern Australia, other bases around the world, including India and a Sentinel Factory in Canada)
General Bolivar Trask- Trask leads the anti-mutant war. He is the only human ever to have survived an encounter with Apocalypse, though he sometimes wonders if it was really his own skill that saved him, or something else. Trask is more afraid of mutants than anything else.
Colonel Duncan Matthews- An officer in Trask's army, overseeing the Sentinel factory.
Arcade (Webber Torque)- A civilian working under Trask in programming.
X-Force (no set base of operations)
Wolverine (Jack Logan)- A tortured mutant opposed to Trask.
Mastermind (Jason Wyngarde)- Wolverine's partner, who is also opposed to Trask. Mastermind abandoned his children, Jean and Todd, for reasons unknown.
Quicksilver (Pietro Lehnsherr)- Most loyal to Wolverine's cause, mostly to spite his father, Magneto. Wolverine's recognized right-hand man. He has a chip on his shoulder, but he's still very much like our Pietro.
Gambit (Remy LeBeau)- Dedicated to Wolverine's cause. Loyal, but not fanatical. Not much different from our Gambit.
Cannonball (Samuel Guthrie)- Loyal to Wolverine's cause. Cannonball is not very smart.
Wolfsbane (Rahne Sinclar)- Loyal to Wolverine's cause. Rahne really likes Pietro, but he doesn't seem to realize it.
The street urchins (no team name or real base... they just sort of wander around)
Johnny "Pyro" Allerdyce- A... rather happy guy. He doesn't seem to mind pain, at all. In fact, his friends are beginning to think he enjoys it. The unofficial leader of the gang. He's and Tabby are... sort of going out. It's more of a physical relationship.
Tabitha "Tabby" Smith- Wild party girl... actually, she's pretty much the same as our version. Tabby's sleeping with Pyro, but their relationship really doesn't go beyond that.
Evan Daniels- Originally lived with his aunt Ororo when his parents died. When she was recruited, he met Pyro and Tabby, and he's been hanging out with them since. He wants to get Apocalypse for taking his aunt away from him, but he realizes that he's too weak and really can't do much about it. He's more bitter than our version, but hides it. Likes to goof off with his friends.
Others (unaffiliated)
Jamie Madrox- Homeless kid who steals to get by. He'd make friends, but he's a sadistic little bastard who doesn't seem to understand that nobody else thinks the way he does.
Sabretooth (Victor Creed)- Shh! It's a secret.
Destiny (Irene Adler)- Shh! It's a secret.
Characters who probably won't show up (hey, I'm still writing, but I don't really see much of a need for these characters)
Jubilee (Jubilation Lee)
Taryn
Paul
Nick Fury (will be mentioned, along with Captain America)
Okay, update time.
Xavier Institute, location mobile [currently in New Zealand]
Magneto (Erik Magnus Lehnsherr)
Forge (real name unknown)
Mystique (Raven Darkholme)
Baby Kevin- A child from Tibet and sole survivor of an attack by the Horsemen. An enhanced mutant, even at his age.
Apocalypse's German Base
Apocalypse (En Sabah Nur)
Beast
Mastermind- Revealed to be a mutant slaver working for Apocalypse. Mastermind is not under hypnosis, but he seems to want his children to work for Apocalypse, too.
Wolverine- Revealed to be a mutant slaver working for Apocalypse. Wolverine is not under hypnosis, so it is unknown why he is doing this.
Mesmero
Kurt Darkholme- Captured by Mesmero and brought to Apocalypse. Now the subject of Beast's experiment.
Todd "Toad" Darkholme- Captured by Mesmero and brought to Apocalypse.
Marie "Rogue" Darkholme- Captured by Mesmero and brought to Apocalypse.
Converse (Jean Grey)- Captured by Mesmero and brought to Apocalypse.
Stalwart (Freddy Dukes)- Captured by Mesmero and brought to Apocalypse.
Ariel (Kate Pryde)- Captured by Mesmero and brought to Apocalypse.
Currently on the move:
Gambit (Remy LeBeau)
Cannonball (Samuel Guthrie)
Wolfsbane (Rahne Sinclar)
Havok (Alex Summers)- Escaped from Apocalypse's base, going with the others to get help.
The street urchins
Pyro- Lost his hand... actually, I don't think I specified which one. I guess his right.
Tabby
Evan
Scarlet Witch (Wanda Lehnsherr)- Separated from Scott and the X-Men, traveling with the street urchins.
Under Apocalypse's control, location unknown
Death (Archangel)
Pestilence (Iceman)- Iceman was killed by Pyro. A replacement has been not yet been found.
Famine (Avalanche)
War (Storm)
Jamie Madrox- Taken by the Horsemen to serve Apocalypse.
Scott Darkholme- Taken by the Horsemen.
Quicksilver (Pietro Lehnsherr)- Taken by the Horsemen.
Other:
Sabretooth (Victor Creed)- First appearance next chapter