8:55 AM
I don't know whether I gave an update about the status of this, but since someone asked me let me write some lines.
On my local built, I have successfully created a version that supports Run Configurations. It is possible to start Mathematica from IDEA and through parameters it will be further possible to load a package at startup and open files etc.
A more sophisticated support of communication between IDEA and Mathematica requires to maintain a MathLink connection and to control the front end completely over this connection (it is exactly what is done in Workbench). This would be a lot of work (I guess about 5k lines of code) and more important, it won't be possible easily because controlling the front end with FronEndTokens is not documented well.
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