Yeah, microwaves are lasers too--they're just lasers at a very specific frequency which happens to be ideal for heating up water. If what you're trying to heat up is not liquid water, then they fail horribly (see, for instance: ice cubes. Microwaves don't do a thing to ice cubes...unless they've already started melting, then the melted liquid part will get hot).
So yeah, if there's some frequency that kicks the crap out of the Anopheles Quadrimaculatus (by far the most common transmitter of malaria) then it could be efficient. What bothers me more about the article is how much they seem to be planning to bully nature--the plans there indicate that they're trying to either make AQ and similar breeds go extinct, or planning to release genetically modified versions to destroy the current gene pool. I mean, accidentally killing/altering an entire animal species happens by accident more often than humans would like, but doing so intentionally makes me a little uneasy.