Irridium said:
Your the only one who can pass through the Relay. Meaning only you can choose who sees it. You could have just not given anything to Cerberus.
That is completley wrong. It's the exact opposite of what is correct. Cerberus will be the ones that controls who gets the base, no matter what Shepard says. The Illusive Man doesn't given a damn about Shepard's opinion. It's pretty obvious he's keeping the base to himself.
You think you're the only one with the IFF? Cerberus obviously copied it and integrated it into their ships. In fact we know they did, since we see them flying towards the base at the end of the game. Cerberus had access to the base. No other group can use it. Let's say you wanted to give it to the Council. Well, the relay is in terminus space, which the council can't go into without causing a "political shit storm". The only way they could get in would be after long negotiations with the various factions of the Terminus. That would take forever, especially when you consider how unstable those factions are. You negotiate with one leader, he gets shot in the face, and now you have some new asshole to deal with. There's also the high probability that these factions would just tell the Council to piss off and you wouldn't get anywhere. But let's pretend they somehow manage to get an entire fleet through the relay. By that time, Cerberus is guaranteed to have fortified the place, and they will use their new Reaper tech to obliterate anyone who tries to make them share. This is assuming that the likely scenario of Cerberus fucking up doesn't come true, of course.
Those two options really were the only options you had.
Most of Sovereign was taken by the Keepers. The only thing they've gotten from it was the ship weapons upgrade Garrus gives you. Not much of Sovereign was found, so it wouldn't give enough info on the Reapers. If there was more on it I must have missed it.
You are correct, most of Sovereign was dragged away by the Keepers. However, some people have managed to acquire pieces of it. You know that super beam your ship gets through the upgrade? That was reverse engineered through Sovereign, according to the log book. So some people are studying Sovereign without going crazy, so I'm guessing the Keeper's dragged away the parts of Sovereign that would have caused indoctrination.
There are also perfectly logical reasons to keep the station. Yes, bad things happened when researching Reaper tech. The researchers get indoctrinated. However it takes weeks to get indoctrinated, meaning you could cycle out researchers to help prevent this.
There has never been any clarification over how long it takes for indoctrination to settle in. All that has been mentioned is that the time varies based on your own mind. So Cerberus can't just swap out scientists every once and a while and think they will all stay sane. Plus one of the big things that makes indoctrination such a problem is that you don't realize it is happening. By the time it becomes noticeable, you're already to far. If it was easy to spot indoctrination the crew on the derelict Reaper would have left.
The risks are to high. Nothing good has ever come from studying Reaper's in close detail. There is no guarantee about what could happen. Again, this could lead to the Reaper's getting access to the Cerberus information network, which is apparently light years ahead of their science department in that it is actually good. With that, the Reaper's gain a huge tactical advanatge.
And no way in hell would I give it to Cerberus, but when the only choice at the end is "destroy most useful piece of tech you've found so far, leaving yourself no better off than when you began" or "give it to the only people who are actually trying to stop the Reapers" I don't have much choice. As I've said, I'd have told Cerberus to fuck off, used the station to prove the Reapers to the Council, and try to study it, or try studying one of the millions of ships in the debris strewn around the station. Plus, if anything bad does happen, they could always destroy the station whenever they want.
See my above statement about why Cerberus, and only Cerberus, can have control over the station.
So far even with all evidence stacked against them, they won't believe it. Form what I can gather, the only way they'll believe it is if either the Reapers invade, or they see some very extreme piece of tech. The Reaper base would be perfect for this.
And Bioware has already kind of butchered the story, what with the Tali romance and such. I would not be surprised if it got worse.
You don't need to save the base to convince the Council. EDI downloaded tons of data from the base, all of which is solid evidence. Well actually it's not any more solid than Sovereign itself crashing through the Citadel, and they somehow convinced themselves that wasn't a Reaper. The council clearly operates on fucked up logic that is impossible for you to comprehend. If they dismissed that, nothing will convince them. Not even the base. However, it's heavily implied that the data you collected will be proof. So this is just a case of BioWare messing up.