Well, I see plenty of drow-bashing posts on these boards, so I'd say drows (and to some degree elves in general) are considered cool to hate. Of course, they were initially designed based on a pretty munchkin concept--every drow was a friggin' fighter/thief/cleric/wizard. As Ravellion points out, mind flayers have abilities the PC's don't (and can't) have. Drow, OTOH, just co-opted everything everyone could do. That form of uberness turned off as many folks as it appealed to.
Mind flayers filled a niche that seemed kind of empty--still is, kinda. In D&D, where the vast majority of monsters are dumb bruisers that sit in a room or cave and wait for something to bite, Mind fllayers are a race of evil geniuses. While they're utterly inhuman, they're still grounded in the same world the heroes live in, and have some of the basic needs that civilized mortals have: the need to mate, the need to raise their young, they need government and commerce. It's all a warped, twisted, evil version of how humans do things, but that sets them apart from demons and devils and the like.
Same goes for drow to some degree. It's why ENWorld constantly sees posts whinging about "why do so many adventures have drow or gith?". If you need a savage, primitive race, you've got lots of choices, but if you need one that actually produces well-trained soldiers, spies, and spellcasters, the list is just not that long.