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Duplicate src packages when importing an existing project in Eclipse

This is not an issue, actually It's fine.

Eclipse displays the package view (as you pointed in the first red square) and also the directories inside your project (the second square).

As you can see in your screenshot, the first 3 folders contain the package icon (that's because you are using the Package Explorer view), then below your Maven dependencies you can find the physical folders.

If you don't want to see your package folder you may consider using Navigator view instead of Package Explorer.

Btw, you can configure filters for your view by using:

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Then select the filter you consider appropiated.

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