Flooded with malware/ zero-byte files

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I have a few websites with extremely low use; however, they’ve been flooding with malware since late july.

Of note are thousands of files names things like “akfwjmgb.php” that have no content and are zero bytes.

I’m not a developer or a coder, but don’t mind getting my hands a bit dirty.

What’s typically done about this? Is there something that can efficiently scan/remove?

FYI, the host includes Imunify360, which doesn’t seem to be picking anything up.

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Now, let’s say that my course of action is to wipe out my installation and start over.
What’s typically done at this point to avoid another malware flood?

thanks

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