In Q, Fuyutsuki let's Shinji know that Gendo is willing to go all lengths to make sure his plan comes to fruition, even at the expense of his own life(his soul). He talks as though this hasn't happened yet, but this conversation was
before the activation of Eva Unit 13 and all the events that followed that(4I, GUFO, SEELE dying, and Gendo's short ending convo with Fuyu). I personally think there was ample opportunity for Gendo to already have sacrificed his soul - though, just because something might be there, doesn't mean there is.
Gendo already seems strange enough throughout the film. The only way I see him expressing humanity(defined as having humanly characteristics) is his longing for Yui(still prior to Eva 13's activation). He doesn't care much for Shinji and talking with a giant severed head(or even being in the vicinity of such a thing without flinching) is abnormal.
There's no significant evidence for either position but does anyone think Gendo may already be dead?