I have found pieces of the story here in the forums and in different Wikis. Where is the best place to follow the story of heroes, villains, and the unfolding story line of this game?
For instance, if I just want to know the most about the Freedom Five, how do I get that info? Who joined, when, who left, what fights changed them, etc.
Christopher's brain because we can only speculate based on the cards we have. We have some items confirmed but Christopher has not released the whole SotM story.
He has released the hole story.
A lot of holes for sure
The Justice Hole?
It's largely a mystery but there are a few pieces we know plus a lot of forum/fan speculation. Feel free to join in!
Here is what we know:
SotM starts basically with the Freedom Four (Tachyon Bunker Legacy and Wraith), a government funded team of Superheros. Ryan Frost aka Absolute Zero starts off as a patient of sorts in Tachyon lab after his accient. She built a suit for him with government funding and he gets an offer to join the team as a way to pay off his debt. He refuses for a long time, but eventually gets tired of his isolation in the cryo chamber and joins full time as the 5th member.
After the creation of the Freedom Five, there is a short window where the Wraith is assumed to have been killed (see Wraiths incap art). The comic numberings go from a Freedom Five Annual back to a Freedom Four Annual, back to Freedom Five the next year. The story behind this is unkown.
After this during the Freedom Five Annual #11 is our first apperance of Unity, who works under Tachyon in her lab and becomes an Intern for the Freeom Five.
Freedom Five have a bunch of pivotal fights including the arcs Moonfall (Baron Blades terralunar beam plan) and Sunrise (Dawns first major confrontation that we know of). The Iron Legacy story line is a huge turning point as well. If Legacy and his daughter Young Legacy never fought Iron Legacy from a darker alternate timeline, they would have been healthy enough to go to Wagner Mars base to try and stop one of Baron Blades major plans. Had they gone to Wagner, one of them would have died in a trap (in fact, if Young Legacy had died in that confrontation, it's the exact scenario that produced Iron Legacy in his timeline). Neither of them were there for Barons trap however, which altered the course of history.
Baron Blade also put together the supervillain team Vengeance Five to specifically combat the Freedom Five, although his attempts proved unsucessfull.
The Freedom Five has teamed up wtih almost every hero of the Multiverse at some point or another. They may not be the focus of many of the side story lines, but the Freedom Five Annuals mark major cross over events that feature the majority of our core Villains at some point or another.
Thats about all the solid information I have off the top of my head. There is a lot we don't know, but we can piece together a good rough skeleton from the information avaliable. Feel free to share your own thoughts and ask questions!! Who knows, if you ask the right questions, Chrsitopher has been known to pop in randomly with some vauge answers from time to time. With anything else the forum has some pretty damn smart people who love to try and answer these things.
Edit:
By the time Tactics rolls around (takes place a few years after the SotM storyline ends), the Freedom Five have completely broken off from the Government. Wraith reveals her secret identity to the public, spends the majority of her familys fortune to buy off Absolute Zeros suite, build a new Bunker suit (the old one had to be returned to the Army), the Freedom Tower, and builds Tachyon a new lab. The Freedom Five have become a private entity by this time. There also seems to be a public outcry against super human individuals, hero or otherwise (though the exact reason is unknown). Unity continues to act as an Intern for the F5, although she now wears a FV belt with an I on the end (she claims the I stands for "intern", but everyone else knows she is pushing to be a full time member. VI would be 6 in roman numberals)
The vast majority of our solid information comes from character bios, all of which can be found on the wiki. The rest of our information comes from piecing together the quotes at the bottoms of cards, their art (which frequently matches the quotes), and the comic numbers cited by the quotes which can provide chronology clues. There have been other hints provided by the Greater than Games team, on the forums and at cons, but those tend to be few and far between.
It would be really cool to see all the information we've gathered so far collated and put into the wiki (which has places for it, but they tend to be blank), but that would be a major undertaking that I unfortunately don't think I can really contribute much to at the moment.
sotm.wikidot.com
as Arcanist link accidently has the greaterthangames.com/forum in it ;)
As for putting it on the wiki... every little bit helps! If you got something you want to put up there, put it up! I may format it to fit with everything, but unless I can prove something is actually wrong, I don't take it down. Even if you only do one little page, the more the merrier!
**looks at spiff. Puts another dollar in the jar ;) **
:)
The real fun part is attempting to work out when the two resident time jumpers (Omnitron-X and Chrono-Ranger) turn up for battles.
It reminds me of Dark Souls, a bit. Having to piece together the story from context clues, item descriptions, and pictures.
I just realized something from reading Foote's summary of Tactics.
With the old Bunker suit back in military hands and a public distrust of heroes ready to explode we could realistically see Bunker vs Tyler Vance in the Bunker mk II
That'd be super awesome 
Uh, except the Bunker suit is way beyond Mk II. G.I. Bunker is from WWII. No real telling when the Bunker project began unless we can get Christopher to say.
Another source of information comes from the promo cards, although some of those take place in alternate timelines.
Omnitron is defeated but is mysteriously resurrected as Cosmic Omnitron. Baron Blade tries to salvage Omnitron into a sinister weapon. Later a damaged portion of Omnitron attempts to rebuild itself as a drone factory.
Fanatic has her faith shattered in a confrontation with Apostate but returns with a faceplate as Redeemer Fanatic.
Ra gets owned by the Ennead and wanders around until he returns with the power of Horus.
A team of heroes join the Argent Adept against Akash'bhuta and become known as the Prime Wardens which includes Haka, Captain Cosmic, Fanatic and Tempest.
Somehow Spite and Gloomweaver team up and go after Rook City. Another team of heroes form to protect Rook City made up of Setback, Expatriette, Mr. Fixer, and NightMist.
An alternate future has the Freedom Six led by Tachyon with the addition of Golem Unity and one-armed Tempest.
In the distant possible future Earth has been overrun by vicious monsters and only the Eternal Haka has survived along with a mysterious sentient being known as Con who has connections to former members of the Freedom Five. Chrono-Ranger ends up in this Final Wasteline timeline due to a rift in time.
It was simply a way to refer to the new tachyon built bunker suit, since it is still called "Bunker" even though it is a completely different system.
Besides, in my head we have prototype (G.I. Bunker), then Bunker and then the 2nd updated version of bunker. EOW Bunker doesn't count as it is in a closed timeline. It's much simpler than trying to list it exactly accurately based on information we don't have.
Last week Christopher and I were both on a cruise ship with 900 other nerds. One of the awesome things about this ship is that it has a 24 hour game room set up in the conference room with games brought by attendees.
Naturally, Sentinels of the Multiverse is a popular choice. I thus found myself teaching SotM to a group of people and explaining to them how the flavor text on the cards were all from the made-up publishing house of Sentinel Comics, which was mostly only recorded in one of Christopher's notebooks. I was saying this just as Christopher happened to be walking by. Christopher took the opportunity to not only corroborate my tale, but to somewhat smugly add that said notebook was actually on the boat.
After I picked my jaw up off the ground (I mean, really, it's on the boat? Where it could be lost at sea?! Instead of in a safe or something?!) we went back to showing Baron Blade who's boss.
Out of curiosity, has it ever been confirmed whether the incap sides are events that definitely happen to that character in their timeline or whether they're showing events that may happen? I know some definitely happen in the canon storyline, but I've never been clear on whether it applies to all.
They seem to be events that happened in the comics. The Legacy incaps are believed to be parallel timelines.
They all definitely happen and are scenes depicted in the comics at some point
Isn't Bunker's suit an extension of the Ironclad program from the Civil War?
GI Bunker was the first Ironclad piloted into active combat. Doesn't mean it was the first suit.