IntelliJ Idea Scala files not available in 'New' context menu
Import the project by selecting its build.sbt
file - not the project folder, not the eclipse project file. Then everything is imported correctly.
For me it works as following:
Right clicked on src and selected "mark directory as" -> source root.
This may also be a caching issue.
If so, try File
then Invalidate Caches / Restart