If you re-read the article, Alonso never apologized for the cover. He apologized for the mixed message it sent. I respect that.
What I have read leads me to believe that most women don't have a problem with the cover per se. What they have a problem with is that this particular book was being built (and advertised) as being aimed at women. And then Marvel put an erotic looking Spider-Woman on one of the covers. An extreme example of what turns most women off from comics. The impossibly positioned heroine showing off parts of her body.
(I'd like to note that some have tried to come up with comparisons of men in highly sexualized poses for contrast. A seemingly futile effort since unless a guy has his hips thrust forward with a bulging cod piece there aren't many suggestive poses for men. This would also be a bad example because most men would laugh at how ridiculous that is. We're just wired differently when it comes to this stuff).
In the end, this may be overblown but it certainly necessary for the continued growth of a women audience. The fact that Marvel made this one misstep on the 8-10 female books should be applauded. I'm not saying this should be ignored, just that it's also important to note what they get right.