I'm going to turn this in as a bug in Archive::Zip.

Update:

It isn't a bug, just a lack of understanding on my part. I kept going through the documentation for Archive::Zip and noticed where it says when you read an archive it is not read into memory. So when I get a member object for a file with the removeMember method it is actually just an object with a file offset into the zip file. As soon as I save the updated version of that zip file the offset is invalid.

To make my original code work all I needed to do was save the second zip before the first one.

In reply to Re^2: crc error in zip archive using addMember() by Gulliver
in thread crc error in zip archive using addMember() by Gulliver

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