Talk:Koutarou Amon/@comment-113.22.5.225-20150406040955/@comment-25047329-20150406042011

The anime leaves a lot out but the assumption is that he was taken by Aogiri. In the manga Aogiri and Dr.Kanou are working together to create one eyed ghouls and they took advantage of the chaos during the Anteiku Raid to kidnap a bunch of CCG investigators to use in experiments. It's strongly implied that Amon was one of those taken.

The anime is so strange in this regard though I don't know if the outcome is the same.