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It is explained rather detailed: Quarians didn't evolve immune systems because, on Rannoch, there were no harmful bacteria or viruses, but symbiotic ones. Having something that fights them - aka an immune system - would not have been helpful but harmful to the quarians.
This worked perfectly on Rannoch - trouble is, that on other planets there ARE harmful diseases, and the quarians were simply not prepared for them .
But it's true, they also talk about how the sterile environment weakened them.... it's a bit contradicting itself.
Then the fleet life took them the rest of the way.
Vaccinations help a lot and the Quarians are not little weaklings. But they do not have the systems to take in all sorts of potential dangers. They need the suits until they can live somewhere that taking off their suits for an extended amount of time, while still exposing them to some dangers, is safe. Technically a super controlled environment could do that for them, but it would have to have all the complexity of, well, a place like Rannoch. And while maybe this might be possibleee.... I think they'd rather just take Rannoch back.
In humans, most allergies are due to IgE antibodies and other immune signaling. If you have no immune system, you can't produce antibodies/histamines and you can't have allergies.
If you grow up on a planet where most bacteria are helpful, this could actually confer limited immunity through competitive inhibition. In particular, the symbiotic bacteria "crowd out" pathogens - eating the same food, or even producing toxins that inhibit harmful bacteria.
But separated from Rannoch there are no symbiotic bacteria anymore. That's kind of their problem.
what you fail to carry over is that your arguement is based on human biology from a human thinking point.
quarians live in an encounter suit all their lives is just because their immune system is so weak, rannoch was enough for the quarians but outside this because their bodies can not stand foreign germs getting into their bodies because their immune system reacts in ways that could be considered uncontrolled outside what their immune system was designed for. any rip in a suit or foreign bacteria could be lethal to a quarian.
consider this, what if the immune system is attacking the body instead of the bacteria, what if the immune system isn't reacting to the foreign bacteria but the reaction to the quarian's own body and the immune system detects this and starts attacking the body?
it was never stated how a quarian dies from contamination. also in tali's case when you do make her an LI, she needs a lot of heavy prep and shep needs to be starlized in order to be with tali as the animo elactricy makes any intimate contact a deadly business.
dont forget to visit Mordin after that!