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Is it possible to run mod_perl enabled Apache as suExec?

The answer is No. The reason is that you can't "suid" a part of a process. mod_perl lives inside the Apache process, so its UID and GID are the same as the Apache process.

You have to use mod_cgi if you need this functionality.

Another solution is to use a crontab to call some script that will check whether there is something to do and will execute it. The mod_perl script will be able to create and update this todo list.