There's a lot to respond to here, so I'm gonna break things down bit by bit and address them individually. Hopefully I get everything

Trappedinwikipedia wrote:

There's some stuff that rubs me the wrong way here. I don't really like the idea of the one super science hab which is so much more advanced than anyone else. It doesn't really sit right with me looking at what we know of pre fall politics. Earth being the center of most things, with a comparatively tiny off world population being more fiscally agile and mobile. We have a pretty good idea where the technological hub of the setting was-Earth. It also feels like a super-science planet of hats, what with having "all" the best scientists, which bugs me. Bright is kind of a similar hab, but they don't have antimatter proof materials, or other technologies decades ahead of a quickly advancing setting. You're setting these people up as equal to or better than the Factors.

I added some things in the second document that can probably deal with this stuff. The artifacts scattered about the habitat have their own backstory thing that resourceful players can dig up, the artifacts are of extraterrestrial origin, and are far more advanced than human tech. I can expand this so that the research done on these artifacts was what allowed the habitat to advance so rapidly.

Trappedinwikipedia wrote:

Speaking from a players standpoint, I don't buy a dwarf planet sneaking off with thrusters. That kind of energy should be visible from other star systems, even with a Factor drive. Even if there's no energy signal, somewhat that big could be tracked manually, and it's not like every telescope stopped working during the fall. Someone would likely notice the most important hab in the solar system moving all of a sudden. There's also no clear reason why the TITANs would use an inner system station, when they could just convert Eris or something much more easily. It also doesn't really feel like the TITAN's style to make a single super-battle ship when they only needed a single infected person to destroy a city, and a bit of smart dust to take Iapetus over. The TITANs are pretty subtle after all.

These are some plot holes I'm still working on myself, I pretty much had the general concept and then filled in the blanks to try and make it work. So this part is a bit weak admittedly. I'm considering just having the planet be an outer rim one instead, it made more sense for the technologically advanced hab to be in the inner system closer to Earth, which was the reasoning there, but the artifacts were discovered in the outer rim, so it probably would make more sense. As for the TITANS style being different, each TITAN was unique and had its own ways of doing things, the one I have here is a bit of an eccentric and had a preference for doing things in flashier, more spectacular ways. While most of the TITANs were subtle, this doesn't necessarily mean all of them have to be

Trappedinwikipedia wrote:

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Naturally they will need to head to the primary power station to turn the power back on so they can continue their mission

Why? That doesn't seem like my natural inclination as a Firewall agent. No way I'm turning on the main power to an almost certainly compromised giant space station, especially not before having a thorough look-see just in case. What happens if the players don't turn the power on, burn through doors they can't open, and just physically lift space hard drives to get data? As a player, I don't really like adventures which force me to take actions which I think are a bad idea, so some kind of "but you must" kind of incentive to turn the power on would bother me.

The players could do that, and I certainly wouldn't stop them, the issue with that strategy is that due to the sheer size of the habitat, doing things that way would be incredibly inefficient and time consuming. If they do elect to go about things this way, I'll eventually have them trip an old security system which will activate the power that way. Either that, or I can change it so that the power is turned on by their arrival or by an automated system due to the ship's returning to the solar system

Trappedinwikipedia wrote:

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The TITANS knew they would have no trouble taking Earth, however purging transhumanity from their space colonies would prove more difficult

Would it really? Per X-Risks we know the TITANs already have assets sufficient to take over Luna and Mars in the Quarantine Zones, and that wasn't very hard to for them during the fall. The super battleship just doesn't really feel necessary, or even the kind of strategy they might employ.

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Transhumanity was on high alert, and any normal vessel they sent to carry their creations or to establish a link to hack the habitat would be blown to dust long before reaching an effective range to invade.

This doesn't really seem to have been a problem for them, as Iapetus, and Caloris 18 demonstrate. There were plenty of ships to put assets on thanks to the evacuation of earth, and they can use dust cannons for the rest.

Yeah I don't really have anything for this. I completely forgot about Iapetus/Caloris18. My reasoning for Luna/Mars was that since they were the largest human colonies and the ones closest to Earth, they had been too difficult to perfectly defend and ensure no exsurgents/anything else slipped through, while space stations further away from Earth would fare a lot better as they had far fewer refugees and could adopt a more isolationist approach.

Trappedinwikipedia wrote:

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a great number of dumbed down TITAN forks in charge of individual systems that did not leave when their originator did

A Fetch is already a huge threat, as they're still smarter than practically all Transhumans, and that's about as dumb as TITANs get. On paper, a number of exsurgents, many of which are smarter than more dangerous than most transhumans (it'd help if you detailed what kind, as a Haunter is a lot more threatening than a Wrapper) and a group of Fetches seems enough to complete the project without a hitch to me.

The various forks, after splitting, were then customized and specialized for their various tasks. The TITAN fully intended to have full control of the ship, it only made the forks to handle mundane things not worth its notice, individually these forks are barely even TITANs anymore, and more like highly adaptive operating systems for the various facilities. They were loosely based on the TITAN at one point, but apart from some source code they're nothing compared to the original. Additionally the years of disrepair have treated them poorly, as the hardware they're stored on has fallen into disrepair and files have been lost or corrupted. As for the exsurgents doing things themselves. Much of the technology the ship is being designed with it far beyond transhuman understanding, and while the exsurgents are quite smart, the TITAN never intended for them to understand the inner workings of the ship, they were just grunt workers. They were told things on a need-to-know basis and so without the TITAN they lack the full comprehension of the technology they needed to do much on their own other than try and run the automated systems. The reassembled fragments are probably closer to a TITAN fork than an actual TITAN. Probably more like a Fetch-level entity. As for the exsurgents, they aren't adhering to any previously created exsurgent type, these would be a new creation. I intended to adjust just how powerful they were based on the strength of the PCs.

Trappedinwikipedia wrote:

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After encountering their first xenomorph, the PCs will have to do some digging around to discover the nature of the ship, its general layout, what facilities it has, etc... They then must develop a plan to accomplish the objectives listed below

As above, what happens if they don't turn on the power? What about QE comms, do they break as well?

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By default, the exsurgents recover enough fragments to form this pseudo-TITAN

What do the fragments look like? How big and easy to overlook are they? I don't really want to do a huge block quote here, but the foundry looks like a TPK made manifest. EP combat is super lethal, and recovery from it is pretty slow. Fighting through heavy TITAN war machines, dangerous exsurgents, and potential psi-Epsilon sounds like it'll kill the party fast, especially if they're in a fortified location, and know the players are coming.

In the campaign settings my players have been through prior (not my own modules) the jamming of QE comms is not unprecedented when dealing with TITAN related artifacts. So QE comms would indeed be blocked. The fragments aren't hard to find, despite how weak they are compared to an actual TITAN fork, they're still located in some pretty large computer servers in the various facilities. If the players are looking, they can find them, it's a matter of them bothering to hunt them down. As for the Foundry, this is why it is the first major objective the PCs need to accomplish. I didn't really go into it in either document, but the amount of time passed in the campaign has a large effect on how many defenders are available to both guard and operate each facility. In the first week or so where the PCs are gathering information, not even all the exsurgents are active yet. Even once the exsurgents are fully online in late week 2, there aren't actually a lot of them to start, barely enough to form a skeleton crew of only the most critical systems. If the PCs act quickly they can actually engage the foundry defenders before it's even brought online. There will still be a few war machines, but they will be ones produced before the shut down, and will be in disrepair. Also whenever I have an exsurgent use a psi-epsilon, it will be purely for dramatic effect, I don't intend for them to be used as weapons, even I'm not that cruel. So the foundry, provided the PCs don't sit there twiddling their thumbs for a few weeks, should be taken before a full defense can be mounted. The exsurgents are aware the PCs are coming, which is why one of their high ranking officers is present, but they don't have time to crank out an army to defend the place. Once the foundry falls, I covered in the second document that the PCs can acquire blueprints of various TITAN machines and produce them for themselves. Technically speaking, this doesn't significantly affect each individual encounter, but rather serves as a means of them mitigating the production of other foundries and weakening the enemy forces in a narrative fashion, allowing for the much more fair escalation of combat to happen while still conveying the actual situation and escalation of the enemy forces As a final note, with the players I'll be dealing with, a TPK made manifest is the only way to give em a real challenge. One player in particular, in the most recent campaign we're going through, has single-handedly defeated more than half of the boss enemies meant for the whole party to fight, one of which was done before the enemy even got to attack because of a surprise round. I really can't pull my punches here

Trappedinwikipedia wrote:

What happens if the players send a message and/or themselves or their forks using the comms array?

This idea did occur to me, but it seems to me that as a player, I'd be wary about allowing the comms array to send any sort of message outward. By the time this operation takes place the campaign should be roughly a month in, the ship is now active enough that the risk of maybe sending something..."extra"... along with any message they send essentially kills that course of action. If the PCs are ballsy enough to try and rush the comms tower immediately to get the communications out instead of first acquiring the means to sabotage the place, they can certainly attempt to do so. I'll have to create a sub-scenario for this outcome. I just haven't decided the details of that yet.

Trappedinwikipedia wrote:

I'm not really sold on the engines being immune to everything the players can throw at them except for the one thing which they must do. It feels like a railroad, and not the good kind of railroad. For the above few sections, I don't think minibosses work well in EP. The way combat works, the party rapidly loses effectiveness as they fight, thanks to exhaustion of rarer weapons (seekers, grenades, etc) and the fact that they accrue wound penalties. Having a ladder of more and more dangerous enemies as the party becomes less and less capable makes for a dangerous slog, which will probably kill the party.

They don't necessarily need to destroy the engines, only disable them. Destruction is just the most efficient method. The reason the engines are virtually invincible is because they are made of a hybrid between extraterrestrial and TITAN technology. a TITAN weapon could potentially damage it, but no transhuman weapon is on par here. The types of bombs available to the PCs are useless, no bomb blueprint exists that would be potent enough for the task, except for the antimatter bomb. Theoretically, the PCs could try and hunt down and re-purpose the artifacts on the ship and use them to damage the engines, as they function with the same tech and are on the same level (technically the artifacts are on a higher technological level than the engines, but are all much smaller scale), but there's no guarantee they'd be able to find an artifact capable of the job and figure out how to use it on the engines before it was too late.

Trappedinwikipedia wrote:

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PCs may not have enough time to fully heal in healing vats

Why would the party want to use healing vats in a exsurgent infected hellhole? No surer way of getting infected than that, and after the power screw up, they will probably be very justifiably paranoid.

Document 2 details facilities on their ship, healing vats are provided. They'd have to be considering the combat heavy nature of the module

Trappedinwikipedia wrote:

Why would the TITAN want to fight the party 1v1, giving them rest, with no help? They're not honorable or anything, and personally could just as easily be it assuming direct control over the warbots and SRNs it sends to destroy them. Does it want to win, or just kill the party with a sick robot body? One of those makes more sense to me.

there's a few reasons for this 1) the TITAN is pissed off, the sabotages the PCs do are taken as a personal affront. It is angry at the damage they caused, and insulted by the fact that lowly transhumans were able to accomplish such damages. It is also angry at the exsurgents for their failure to prevent the PCs from causing so much damage, after several of their strongest officers engaged the PCs and failed, the TITAN deems them unworthy for the task of finishing the job. 2) The eccentric personality of the TITAN plays a role. While most level-headed TITANs would respond with the practical action of just mobbing the PCs with nanoswams and warbots. This one feels the only way to properly take revenge is to do things personally. 3) This TITAN is far from the omniscient-like beings the actual TITANs were, it was cobbled together by exsurgents pulling bits of source code from TITAN derived programs and extrapolating the rest. While it has a fair portion of their power, it is far from a cohesive entity. It is a Frankenstein's monster of coding and its actions are irrational at times. It's in combat tactics will also reflect this.

Trappedinwikipedia wrote:

It seems weird that Firewall would wait 4 months to resleeve a team of sentinels sent on a dangerous mission when a Martian Ranger gets resleeved in a week of no-contact.

I was basing this off some other campaigns and stuff. I was under the impression that unless people were confirmed dead, the standard protocol was to wait a certain period of time before resleeving them due to lack of contact, due to the moral and legal stuff involved with having two copies of an ego running around at the same time. I suppose Firewall wouldn't care about moral/legal stuff, but when they resleeve the PCs isn't really important (pretty sure I mistyped that section anyway), the point is that once the PCs are exterminated on the ship, nobody knows what's really going on with it, and by the time anyone can find out, it's too little too late.

Trappedinwikipedia wrote:

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This part of the adventure is the equivalent of a "bad ending" cutscene in a video game. At this point the PCs do not actually have any power to significantly change what happens here, but they do play a role.

This sounds kinda lame to me. Why not just narrate it if the PC's can't really change the outcome? What happens if they die here?

Most of it is indeed narrated, but the thing is that making the PCs fight through things themselves is meant to drive home some thematic points. By design, the PCs enter this battle better equipped than ever, but they WILL die. Their "win" is holding off the enemy long enough for the weapon to fire, which will happen when the GM determines they can't hold out much longer. The PCs don't know that this is the case though. To them, it's a desperate final struggle that quite literally has all of transhumanity on the line. If they fall, everyone falls. The amount of tension and dramatic effect here is the point, obviously from the standpoint of the GM, actually letting transhumanity be exterminated doesn't make much sense. But within this story, from the view of the PCs, it is a battle where the stakes could not be any higher. So yes the ending is scripted, and the PCs can't actually save Eris. But the experience they get from that high stakes struggle is the point, not the actual result.

Trappedinwikipedia wrote:

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Firewall has assembled a very large fleet for the amount of time they had to work with

Is this supposed to be Firewall's fleet? I don't think an underground, unsanctioned intelligence organization should have a large war fleet. It makes more sense to me as elements from the Titanian fleet, as Firewall is close to Fleet Intelligence, and Titan is the Rimward-most major naval power, but that may have been what you were assuming.

Yeah, I don't literally mean a fleet of ships owned by Firewall, I mean a fleet of ships Firewall has burned lots of rep, called in lots of favors, and pulled a lot of strings to get together to fight the enemy. I called it Firewall's fleet for simplicity's sake, but in reality it's a bunch of smaller fleets from various factions that are all there to fight the same enemy.

Trappedinwikipedia wrote:

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While the majority of the Firewall fleet engages the TITAN ship to distract it from using an orbital bombardment on the weapon

How? It's not like there's really an upper range bound for attacking an unmoving target from space.

Directly targeting guns that could perform an orbital bombardment as well as positioning themselves to intercept any attack fired at the building, sacrificing themselves rather than let their only hope get destroyed.

Trappedinwikipedia wrote:

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Eris has been completely destroyed

What happens to the Discord Gate?

Haven't decided exactly, presumably it will be integrated with the TITAN ship/habitat somehow. Whether part of Eris itself with the gate on it is left intact nearby the ship or if it is actually directly moved onto the ship is to be determined. For all intents and purposes transhumanity loses access to the Discord Gate.

Trappedinwikipedia wrote:

For some general stuff: This seems really combat heavy, which I don't think EP lends itself to exceptionally well. PCs are pretty fragile, and fights are super snowballey thanks to the death spiral, which typically hurts the party more than the GM's OPFOR. EP also handles itself better than a lot of systems in social or exploratory/skill challenge type things, which seems mostly absent. This scenario also seems to have some strong ideas about what the players will attempt, such as during the power on, or direct assaults against the three objectives. (The mini-bosses don't make a lot of sense if the party deploys stealthy drones for example).

The scenario as I've laid it out does indeed make assumptions about what the players will do, but this is just the main scenario. Essentially, through some method, the players need to 1) stop the ship from actually reaching transhuman habitats and fulfilling it's actual purpose for a long enough time that Firewall can take action 2) Stop the TITAN from abandoning the stalled ship and broadcasting itself to an unprepared habitat under some guise or another that the habitat won't see though since they're obviously not expecting a TITAN to be coming 3) Get off the ship alive to actually notify Firewall (which does involve defeating the pseudo-TITAN one way or another, that part is unavoidable) In the end, I hope to have created multiple methods for the players to do these things. This is merely a first draft with a main scenario of the most direct methods of accomplishing the goals

Trappedinwikipedia wrote:

I'm not really sure what kind of resources the party has. Does their ship have its own nanofabricators or healing vats? Can they be infected? Does the party know if they can be infected or not? Can the party be infected by the Exsurgents, and if so, what kind of infection is it? Are exsurgent plagues present? What kind of exsurgents are present? Self Replicating Nanoswarms or active Fetches? A lot of the difficulty moderation seems to be missing besides ambiguous stuff like "deadly" or "strong psi". What does deadly mean to you? Speed 4 combat monsters with invisibility, 70+ combat skills and seeker or rail weapons? Speed 1 or 2 fancy gunmen? Physically imposing but stupid beasts?

I listed the resources in the secondary document. They do have their own healing vats and nanofabs. As for infection, they do not know if they can be infected. For the most part they can't, the Exsurgents and their particular strain of the virus have mutated so much that it would take a good deal of time for the strain to undo those evolutions to affect the PCs again, then evolve back. There is the danger of a psi-user being subverted when they use the artifacts the party finds on the habitat, but the process is very gradual and has its own system attached (the rough draft of which is listed in document 2 as well) The only Exsurgents present on the habitat are the original kind created for this module. Their ability for rapid adaptation will result in a variety of sub-types arising, but all will technically be offshoots from the original. What I consider deadly... honestly this will depend a lot on the party itself. When I'm making an enemy very powerful I tend to do so in a variety of ways, the 70+ skills and big guns is one way, and physically imposing enemies are another I often use. However the theme of the Exsurgents in the campaign here is accelerated evolution, combining biological evolution's creativity with the rapid modification potential of a machine. I will start them off as a pretty standard enemy, probably with skills in the 50-60 range, pretty basic weaponry, and their only real challenging feature being that they're very durable and well armored, as well as intelligent. Then they'll adapt to suit the individual party they face. This gives me the liberty to fine tune the challenge of the module in a way that actually makes sense with the plot, rather than arbitrarily raising or lowering stats.

Trappedinwikipedia wrote:

I like the basic idea of racing against the clock against something really bad, but this kind of feels like it was written for a space opera game and was ported over into EP. The threat seems kind of out of place for Eclipse Phase and the TITANs. EDIT: What are you looking to build the adventure around as its core? The battleship? The tension?

I touch upon this in the documents as well (I think document 2 again). The theme is very much about the tension and horror. The combat serves as a mechanism to drive things home, but it actually isn't the core thing here. What the core concept is is that a small team of sentinels on a recon mission inadvertently awaken this ship. The ship itself is unimportant, its what it resembles that matters. It is an unstoppable monstrosity. A massive, dwarf planet sized weapon designed with the explicit purpose of obliterating them and all of their species. It is an insurmountable foe for a team like them, a horrifying, overwhelming enemy that can't simply be handled with lots of guns or with social suave. It is not a ship, it is extinction given form, and the PCs are the only ones who know its coming. They are the first and only line of defense transhumanity has now. If they don't find a way to do the impossible and stop the unstoppable, extinction claims them. They are not Olympian heroes who charge in guns blazing and cut down the threat in a glorious battle, they are just measly, frightened, hopelessly outmatched humans in a desperate struggle to merely survive. They are insignificant specks compared to what they face, and yet they must defeat it, and do so quickly. That is what the essence of the campaign is meant to be, not a battle royale or anything, but a dive into existential horror and dread, letting the PCs struggle against the inevitable, with hope growing further and further away with each battle, until eventually they come out on the other side, having survived against all the odds. Their victory made all the sweeter by its sheer impossibility. They stared extinction in the face and kicked it in the balls until it dropped. All the dread and horror leading up to that moment of victory serves to make the victory more meaningful.