(I support eradicating mosquitos)
What is missing from this discussion, however, is the agent of malaria itself. We keep discussing this in terms of the mosquito, as if it is the mosquito that is the agent of malaria - but remember, it's just a carrier - malaria is using the mosquito to further its own ends.
The reservations I think we should have are not about the food chain or about predators/prey, etc. - it is that the sudden pressure we put on malaria itself forces it to adapt to a transmission host/vector other than mosquitos. Perhaps something more difficult to deal with.
We're pushing something dangerous into a corner, bottling it up under high pressure ... we should be worried about where it leaks out to.