When the deploy target is run, the Clover lifecycle doesn't deploy its artifacts. There is a JIRA issue CLMVN-9 open for this limitation.
As a work around, you can use the build-helper-maven-plugin as follows:
<plugin>
<groupId>org.codehaus.mojo</groupId>
<artifactId>build-helper-maven-plugin</artifactId>
<executions>
<execution>
<id>attach-instrumented-jar</id>
<phase>verify</phase>
<goals>
<goal>attach-artifact</goal>
</goals>
<configuration>
<artifacts>
<artifact>
<file>
${basedir}/target/clover/${project.artifactId}-${project.version}-clover.jar
</file>
<type>jar</type>
<classifier>clovered</classifier>
</artifact>
</artifacts>
</configuration>
</execution>
</executions>
</plugin>
A subsequent 'mvn deploy' will lead to a deployment of the instrumented jar, the 'Clovered' version as a secondary artifact along with the non-instrumented (original lifecycle's) primary artifact.