Actually, I think this episode has pretty much wrapped up the whole alien crisis and resolved the fate of the world.
I don't disagree with a lot of the complaints towards this episode in the overwhelmingly negative reviews. But I'm not looking at THE X-FILES from that perspective; I'm looking at "My Struggle II" as a climactic chapter at the end of a book that was written without a clear outline and written with many improvised hints and clues towards a future that was not in any way mapped out.
In many ways, I saw the Spartan virus as a metaphor -- a metaphor for the alien conspiracy myth-arc that had infected the show, slowly killing it over nine seasons that must now be cured.
THE X-FILES has always had a central problem: it's building to a climactic story it cannot tell within its TV format. The original and vague plan to break the format with a big budget feature film finale was set aside when it became clear FOX had no intention of cancellation at Season 5.
So, my interest in THE X-FILES is: how does it handle a story it cannot tell? How can we tell the story of an alien invasion when interstellar dogfights and ray guns and laser swords don't remotely fit into THE X-FILES' office sets and hospital hallways and rural locations and shadowy Vancouver streets? Furthermore, the threats have always worked best as humans.
The Cigarette Smoking Man has always represented how power corrupts and corruption infects; he craves power and importance, his own body is a metaphor for that, riddled with self-inflicted disease to which he is an addict. In contrast, aliens are faceless, personality free and anonymous. Carter's solution was always a non-solution: he stalled for time. He kicked the can down the road, kicking the can 10 years away in the original finale. Now he has to wrap it up. What the hell is he to do!?!?!?!?!?
(Personally, I always thought Mulder and Scully would recruit the ghosts, vampires, werewolves, cultists, demons, shapeshifters and parasites to fight the aliens.)
Anyway! Carter's solution is: the alien menace isn't Reticulans and ray guns. The menace is in our blood, in our cells, in the very air we breathe. The enemy isn't in the skies above; it's in the darkness of our hearts, the sense that humanity is doomed to destroy itself and the Cigarette Smoking Man will speed up the process so he can rule over the rebuilding with only the ones he likes and can control.
So, in this fashion, the alien invasion is recontextualized as an invasion of our bodies, of our immune systems, of our resistance to infection. And this new context makes it a story that THE X-FILES *can* tell in its office sets, in its hospital hallways, in its rural locations, in its shadowy streets. Finally, the myth-arc and the format are merged into a unified whole.
But I understand if you don't see it that way, if you just see incoherent nonsense. I'm seeing it from what is probably a *very* peculiar and eccentric perspective. Both THE X-FILES and SLIDERS were left in a very bad state in their finales and I'm admiring the surgery being done to revive the patient. In my view, if the patient is back on his feet, the fact that he needs a cane and some heavy duty painkillers and a lengthy term of rehab isn't cause for complaint?
I don't feel this is a big cliffhanger. The solution was already laid out; a cure is being made from Scully's DNA and all of the Cigarette Smoking Man's chosen survivors, including Monica Reyes, can be used to mass produce it. I also don't feel that the situation is analogous to MILLENNIUM: the so-called cliffhanger was meant to be a series finale with the idea that a third season would be set in this post-disaster setting, doing a TV version of Cormac McCarthy's THE ROAD. Unfortunately, the Season 2 creators were replaced by a new team who discarded the Season 2 team's intentions.
The other stuff I liked:
Reyes
• The way Monica Reyes came into the show; her contempt for the Cigarette Smoking Man is palpable and her reasons for collaborating with him are presented clearly and without dialogue.
• Even without being spoken, it's clear: Reyes agreed to help the Smoking Man because she hoped to learn everything she could to stop him, hence her meeting with Scully and Scully later calling Reyes "a friend."
• Annabeth Gish played her hatred for the Smoking Man beautifully, especially with her disgust as she gives him his cigarette.
The Smoking Man
• His character has always been a figure of corrupted power and I liked how William B. Davis played the Smoking Man's cruel glee as he motions for Monica to give him his nicotine.
• He shows twisted pleasure in controlling a beautiful woman with a gesture -- the relationship he attempted to build with Scully in Season 7's "En Ami" and a joy he took in using Skinner as a henchman in Season 4's "Zero Sum."
• He seems to especially enjoy that Monica hates him yet has to do his bidding.
• His reasoning for the entire Colonization lie and controlling Mulder through the myth of the alien invasion was presented succinctly and clearly and, like Monica's collusion with him, done without dialogue.
• The line where he remarks that the aliens foresaw mankind destroying itself is a grim and cutting recontextualization of the original show's prophecies of doom and indicates the arrogance of man to think it would take an outside force to obliterate our race as opposed to us doing it ourselves.
Scully Saves Us
• I really enjoyed the rapid-fire scientific discussions between Scully and Einstein, although I only understood bits and pieces of it.
What I loved was very simply, the grandeur and horror of Colonization being reduced to Scully in a lab, surrounded by bloodwork and DNA sequences, looking absolutely determined.
• The Smoking Man says earlier that our destruction is really our own doing; he's just changing the timetable.
• Scully shows that he's not the only one who can do that and the solution is brute force, hammering away at the problem until a cure is found.
The Cliffhanger
• I don't think it's much of a cliffhanger. The world was saved in the hospital.
• Monica Reyes knows who the Smoking Man wanted kept alive; Scully would not have called Reyes "a friend" unless Reyes offered that information; Reyes would not have colluded with the Smoking Man unless she was trying to secure that information.
• There are lots of people out there who can help mass produce the cure now that Scully's devised the method to do so.
• The world will be fine.
• At this point, Scully has kicked Colonization's ass and the alien conspiracy has been laid bare.
• But the appearance of the spaceship makes it clear: there's always more to learn.
Achievements of the Revival
• The Colonization arc has been resolved.
• The Syndicate has been explained.
• A countermeasure to the alien threat has been devised.
• The X-Files have been reopened and the ability to tell criminal procedural stories with supernatural overtones and content has been re-established.
• The full gamut of X-FILES stories has been re-established as well: supernatural thrillers, conspiracy thrillers, metatextual humour, tragedy and drama, and social commentary.
Season 11
I would probably open Season 11 with an episode set however long it's been since "My Struggle 2" where Mulder and Scully have been missing since the End of Days of 2016. Start with Agent Einstein on a case with paranormal overtones, in danger, about to die -- then Mulder and Scully appear to save her. Where the hell have they been for the past year / two years? Not now, Mulder and Scully say: let's focus on the monster of the week.