Have any recommedations on cheap flights to Madagascar?

If you're positive that you're going, you may get a deal through Priceline or Hotwire. Other than that, the best you can get is about $2000 round trip. Good Luck.

Take a boat...flying is sooo overrated!

Well, first of all, the tickets to Madagascar are not cheap, especially if you are flying from US. I went there from Atlanta in December 1.5 years ago and paid between 1700 and 1800$. I think the cheapest time to fly there is end of winter-March, but that's also the time when the weather is worst (i.e., most rains, cyclones). The best bet is end of spring-summer (winter in Madagascar). It doesn't rain that much, but it's a little cooler, especially in the central highlands. If you go to Travelocity and select flexible fare, for this time it will be 1928$ from Atlanta to Tana (airport code-TNR). The cheapest tickets right now (1721$ including taxes) are for November-beginning of December.
And the last thing: when I went there I spent almost all my money, but it was so worth it !