Delta Green wrote...
I think it's extremely short sighted and naive to destroy the collector base, especially when the fate of galactic life hinges on important choices like so. A gigantic reaper armada is on its way, a SINGLE reaper with a few geth escorts destroyed the citadel fleet. A fully shielded Reaper cannot be penetrated by DREADNOUGHTS, their shields allow them to plow through enemy cruisers with near impunity and they have powerful almost laser like weapons that can slice cruisers like they were butter. Every advantage must be taken in the war against the reapers.
It is true that all our progress occured because of the mass relays, tech that the reapers purposefully left us but it is also true they never intended for their thranx cannon, algorithms and IFFs to be tampered with, which shows that they have not prepared adequate defense for all their technologies.
The collector base could yield distinct advantages we could field against the upcoming reaper onslaught, the risks are extremely great but as of this point we don't have much else to go on. TIM is quite obviously out for human interests but he'll come along for the ride if only just to defeat the reapers, anything else after that we'll just have to deal with.
You do know the Thanix upgrade to the Normandy are a replica of Sovereign's/Nazara that could slice cruisers like butter.after all it did take the Collector Ship pretty easily

. So despite the Council "denying" the reaper threat. They have in less than a year after the Battle of the Citadel created a copy of Sovereign's/Nazara Laser Beams. Now imagine Alliance/Council/Quarian fleet with that same laser beam. What better way to beat the enemy than with their own f'n weapon.
When I look at the Collector Base I look at it as Mass Effect's version of a Death Star. Yeah lame but you didn't see the Rebel Alliance try to capture the Death Star to fight against the Empire. Only bad things could come out of it... even with good intentions (pro-human). Unless there is some unknown secret regarding the Collector base other than harvesting organics to create some super being. There is nothing that could come out of it but bad stuff.
Oh what about knowing more about Reaper Technology?! It helps to know the enemy more than you know yourself right to beat them? Okay so we get to know how they create a human reaper... once again what good is it? We going to create some big giant reaper of our own but not harvesting humans but some other organic? Real great way to save the galaxy guys.