You may want to generate only one of the reports, but not the other. To do this you can use the <reportSets> feature within your POM. Below is the default configuration for the plugin. To disable one of the reports, just copy the <reportSets> element below to your POM and remove the <report> you don't want to generate.
<project>
...
<reporting>
<plugins>
<plugin>
<artifactId>maven-pmd-plugin</artifactId>
<version>3.4</version>
<reportSets>
<reportSet>
<reports>
<report>pmd</report>
<report>cpd</report>
</reports>
</reportSet>
</reportSets>
</plugin>
</plugins>
</reporting>
...
</project>