I love and agree with everything in the Qur'an, I find some hadith to be absolutely nasty and disagreeable.
" The Prophet said, "Isn't the witness of a woman equal to half of that of a man?" The women said, "Yes." He said, "This is because of the deficiency of a woman's mind."
3:48:326 Sahih Bukhari.
^^Wut^^
The reliance of some sects (and I know Islam doesnt really have sects like Christianity does) on scholars or w/e. I'm raised Baptist, and I hate the idea of scholars who interpret the religion for you, it goes against everything I believe about God. I remember a girl here (I think it was here...) was giving her interpretation of Qur'an, and it didn't have any contradictions in it, but people cut her off saying "Well do any scholars agree?". It's b/s to put it plainly, and it discourages free thought. If this is Islam, and Islam can only be understood through a scholar, then Islam is undeniably flawed.