Yeah, given how many ports and corrections this game has had...
Original
PC
PSN
PC Rerelease
All of which have involved adjustments and changes, yet none of which touched her name, at all.
Who cares what the rest of the games say? The Compilation's works are nothing compared to the original game. The Compilation retconned tons of things, and nearly every change sucked.
Why would I accept a change to Aerith's name anymore than I'd accept Genesis being added to the Nibelheim flashback? It didn't happen. FFVII is its own game, and, in it, her name is Aeris.
Or Anri. Or Bumface. Or Poopfarts. Etcetera.