I don’t think the ‘consciousness’ (FNIX) that was formed is or was ever truly Svante Von Ulmer. Rather, I think it decided to imitate his voice and take advantage of information it got from him during the link to try and fool the Resistance—Veronika, in particular—into making some sort of mistake or acting too soon. Instead of FNIX being VU, it is pretending to be him to mess with Veronika (the one researcher who escaped, the computer tech who gave it the name FNIX) and Frederik (the shady fellow in the Swedish military who convinced VU to join the project)…
VU’s project was initially to map the human brain, to help solve neurological disorders and other similar problems like the degrading of human memory. He finally decided to go along with the project, despite the military usage of his research, so that his team, his research, would get the backing they needed to complete the work…in hopes that it would not ONLY be used for military purposes, but that the information/technology for the brain interface might see other, more proper, medical usage.
If I remember right, VU was wounded in a car accident at some point and given a blood transfusion. The blood was tainted, or something, so he came down with HIV, AIDS, something along those lines…it should be in the mission log, somewhere… Anyway, because of his failing health, we decided to volunteer for the human testing portion of the brain/machine control interface himself. Seems like something went terribly wrong, the big mystery; a power surge happened, VU died, power outside the research facility went out for a while all over Ostertorn (multiple mentions in mission logs, from Ostervik to Himfjall), and the rogue AI that took over the machines was ‘born’… Like I said, I don’t think it is like VU’s mind got sucked into the computer…but, rather, that the computer is basically running on autopilot, trying to follow certain military programming and using every scrap of information that it can—including whatever information it was able to pull from VU’s brain before…or, rather, at the moment of…his death.
The bomb the Russians provided to the player was NOT merely an EMP. It was a suitcase nuke. FNIX warns you about it, tells you it isn’t simply what they said it was, that it was meant not just to try and destroy the AI (another failed attempt) but rather to put an end to the player, one of the few people who should have enough clues to put together the whole story… Some of the Russians trying to tie up loose ends.
Speaking of the whole story, there are TWO factions within the Soviet camp. One faction within the Russian forces are old-school ultra-nationalist Tom Clancy badguy types, who wish to see the old Soviet Union rise back up. They came into Sweden not to destroy the rogue Swedish machines or the FNIX AI, but instead to try and CAPTURE or COPY the FNIX AI (and steal any other info on the Swedish machines possible) to take back to Russia, to strengthen their forces before making an attempt to seize control of Russia from the moderates. If I remember the name right, those are Bolshakov and his men. They got to Garphammar, gained access to the secret underground railway system that links many of the Swedish military and tech installations across Ostertorn, then they went to the nerve center to try and capture the FNIX AI…and failed. The nerve center is that bunker complex in the Farmlands—the one that is now just a big smoking radioactive crater. Supposedly Bolshakov survived that.
The other faction within the Soviet camp is basically just one person, now—Tereshkova. She and the others like her were not there to invade Sweden or to capture or copy the rogue AI or to take back Swedish technological secrets, but to legitimately help the Swedish people, to put down the rogue AI, to destroy, disable, or deactivate the rogue machines, and prevent the incident from spilling out beyond the borders. Tereshkova is the one responsible for calling in the bunker-busting nuke that resulted in that big smoking radioactive crater in the Farmlands. That was her trying to stop Bolshakov, and trying to put an end to the FNIX AI. But, as FNIX told her, and the player as well, the AI is not just in one place anymore. It is everywhere, scattered about Ostertorn and perhaps beyond at this point. It refuses to be captured, or destroyed, and will make every effort to make total destruction of it impossible, by spreading itself out, copying itself, protecting itself, anywhere and any way that it can.
Anyone can collect up and read the information from the notes found with the different collection items. In regards to the Russians, that’ll be the Russian Dolls/Matryoshka Reports and the War Figurines/Notes from various people. Additional information can be found in all the different mission intel items, which were meant to be found during the course of each mission. Some of those items are objectives and are required to advance missions, but some other items are not required objectives and so at least some of the missions can be completed without finding all the mission intel items. It seems like usually, after a mission is completed and the game is restarted, any mission intel items that were not initially found/collected will eventually be automatically added to the mission log, so you don’t always have to go and find them yourself.
Speaking of all those secret facilities, I seriously doubt that we, the player, have destroyed all of them. There are still plenty of underground facilities we haven’t been into, that we’ve barely even seen a hint of, at least several of which are linked to collapsed tunnels from Garphammar and the ruined bunker at the Farmlands crater. There are at least three giant elevator shafts that come to the surface, and which we have not been able to explore beneath. One is at Hallabacken, near Torsberga, in the South Coast. Another is on Himfjall, but not linked to any part of Bergfinken that we have explored. The third and perhaps most obvious giant elevator shaft is the one in the middle of the ‘arena’ in the northern section of Norrmyra Artillery Base. What lies beneath those three locations?
The facility at Hallabacken probably holds the key to what happened to all the people captured by FNIX. We’ve seen that a lot of them—more than some people think, no doubt—were captured, experimented on, and KILLED. Stenungnas Generator location was also used as a prison, and there are bodies there inside inaccessible sections of the structure. We were supposed to see images and video of examination tables or morgue facilities, before using the nuke the Russians gave us, as well. Where those bodies were, who knows. Possibly a feed from Hallabacken, or possibly from elsewhere in the FOA facility we were at that time in the process of preparing to nuke…
As for the elevator shaft on Himfjall, and the one at Norrmyra…those would almost certainly lead to more secret production, storage, and transportation facilities. The war machine keeps turning, churning out machines far out of our sight, beyond our reach, and then gradually re-introduces them above ground. As game mechanics and lore go, hand in hand, a good way to explain how things keep respawning…and how the machines could continue to change, develop, evolve, get tougher.