Ooh! The "literal"-ness of that suddenly makes a whole lot of sense of the "Who made you God?" / "You mean there already was a God to begin with?" exchange. Eiri's power comes from the amalgamation of his personality withthe Deus Est Machina Trope itself!. Very meta.
Lain is the first in a series of "Serial Experiments". What if Elaine from Lucifer, who also achieves godhood, and who, like Lain is forgotten by the world, is simply E-Lain or the E-model of the Lain experiments?
A meta-example: An article in a 1999/2000 issue of Animerica indicated (roughly) that writer Chiaki J. Konaka's goal was to create a series that wouldn't be received the same way outside of Japan that it was within it. Hindsight now tells us he failed in that regard— most everyone goes "well, what the hell was that all about?!". That's not the Fridge Logic. What is, however, is the fact that he wanted to divide people's opinions about a series revolving around the concept of everyone being, on some subconscious level, connected. Self-defeating, don't you think?
