"Well, actually, that's why I was sent here to bring you back to my 
employers. Since the other one is out there, you might as well do."

Very smart of SEELE not to miss an opportunity. Even if they're no longer around...
And the last part of the sentence should read '..., you'll do just as well."

Then, putting his foot on the other EVAs knee, he yanked the organ out, killing the >monster. 

Just eat it! Or rip it to shreds if it's not to your taste.

"Final authorization code Joseph, 284A 489B 763C. Time index delay, 0030."

You forgot to say silent countdown.

Stepping back, Gendou pulled out his gun and shot the only indicator of how much time >they had left. 

"Attention, this complex will self-destruct in 30 mins. Have a nice day!"

He began to grow fearful of his fathers and guardians safety. 

Yes, did Gendo make it?

	All of NERV looked on with widened eyes as God Himself decided to descend. 

I think you mean God Himself descended, since He has already arrived.