Sailor Star Dust: Contrary to Episode 14 with Ritsuko, I'd say it's apparent that Gendo himself was the Eva's target in this episode.
thewayneiac: Rei 1 would certainly have motivation to go after Gendo if she knows he's the one who imprisoned her in Unit-00.
JC Denton: Eh? Yeah... no.
There's only one Rei soul (remember ep 23?), and it passes on from one Rei to the next (again, 23), so what you're suggesting doesn't make the slightest sense.
thewayneiac: They explicitly show us in Ep. 14 that Rei 1 is Unit-00's soul. Soul division is an established fact in Evangelion (remember Kyoko). Part of Rei 1's soul was placed into Unit-00, the rest went to Rei 2. The two were reunited in Rei 3 after Unt-00 self destructed. In Ep. 23, Rei 2 briefly mistakes Armisael for "the me in Eva".