I know this is been said before but indesign really is unworkable for long periods of time without getting a headache. It is a program designed for text and when that text is unreadable it's a problem. Please please please update this soon.
As of right now the only Retina updates are for Photoshop and Illustrator. You can make text more readable by increasing the virtual resolution in display settings:
Select more space from the scaled resolution options. This will make panels smaller, but will make text sharper.