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It is really hard to say without seeing the code. To me, it looks like your paths are incorrect as the cgis are configured by the apache vhost file to be in /nagios/cgi-bin.
You could also give vshell a try:
exchange.nagios.org/directory/Tutorials/Nagios-Core-Tutorials/Nagios-V-2DShell-Quick-Tour/details https://github.com/NagiosEnterprises/nagiosvshell
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