You don't want to check out the root folders of your modules in SVN. All you want is the content of the trunk. So right click on the trunk folder and select Check out as...
. Check it out as new projects and enable Maven on those project afterwards. Do this with each of your modules and you should be fine.
If you have Maven SVN connectors installed you have an option called Check out as Maven project
. This is very comfortable as it does a few steps for you.