The contents of the .zip archive should not affect DokuWiki - but may trigger your anti-virus software; "security" plugins installed in your web browser, or various security rules imposed on your webserver (
e.g.).
1. Was there an error message in DokuWiki Media Manager?
2. Was there an error message in your webserver logs?
3. What lines in
$DokuWiki/conf/mime.conf (and
$DokuWiki/conf/mime.local.conf if it exists), mention "zip".
4. Is there any alerts in your anti-virus logs?
5. Have you tried different web browsers?
6. Could you give more/some information about your webserver/hosting please?