I believe the file extension doesn’t matter at all, it’s the filename (not including extension) that the scraper uses. However, there are some caveats. The scraper doesn’t like underscores or brackets, and additional info after the name of the game is generally not helpful. What’s in the files has no bearing on the scraper what-so-ever.
Btw, what did you have to do to get eboot games to work?
^^ my other hobby