When creating a new Java project in IntelliJ IDEA, the following directories and files are created:
./projectname.iml
./projectname.ipr
./projectname.iws
./s
You add them as libraries to your module.
I usually have a /lib
directory in my source. I put all the JARs I need there, add /lib as a library, and make it part of my module dependencies.
2018 update: I'm using IntelliJ 2017/2018 now.
I'm fully committed to Maven and Nexus for dependency management.
This is the way the world has gone. Every open source Java project that I know of uses Maven or Gradle. You should, too.