Yes, it's possible to exclude the output of specific plugins installed on your Joomla! website from AMP pages. As you may know, plugins are always executed during the Joomla! request lifecycle, as a result the output of a system or content plugin could be added even to AMP pages causing the validation to fail.
In this case JAmp has specific settings to choose which plugins to exclude from AMP pages, it's enough to enable the following parameter and pick plugins that must be excluded: