This is because one TIE Defender only requires one "kill shot" to remove from the board, but two TIE Fighters requires two kill shots.
Isn't that actually an advantage though? Because even though they have the same amount of health, the Defender doesn't have the potential to lose half of it's firepower after it loses half it's health(as the two Fighters would if one of them was shot down).
It's a disadvantage defensively, for reasons MJ described, but it is an advantage offensively, as if you've killed one of a pair of smaller ships, it reduces firepower by roughly half, but the Defender retains full firepower with half (or more) of its hit points gone.