If your file structure is like this: Standard Directory Layout
Then you dont have to add the resources elemt.
Maven copies by default all the files and folders that are located in your /src/main/resources folder to your build folder and locates them in the root of your compiled classpath files.
if you have for example a file called configuration.properties located in /src/main/resources/configuration.properties
then when running mvn clean compile
this file will be copied to your /target/classes/configuration.properties
So if you remove that part the files will be located where u want them
<resource>
<filtering>false</filtering>
<directory>src</directory>
<includes>
<include>**/*.properties</include>
</includes>
</resource>