Like some other people too, I have the problem with quitting Indesign and Illustrator CS5.
I have a new iMac with El Capitan and will install Creative Suite CS5 on it.
After reaching to install the CS Programms and update them ( It was difficult, because there was the message, that the update cannot close. I should try later)
I tried also the trick with the application manager. But the second update failed, so I search all updates in adobe forum and installed individuality.
Now I have the problem with quitting If I close the programms.
For the last 5 hours I source through Adobe Support Forums for answers and nothing helped.
Every time I try to close InDesign, I get the "InDesign quit unexpectedly" message. Crash report - Process: Adobe InDesign CS5  Path: /Applica - Pastebin.com
I would tried to replace the preferences but the pathways that were suggested do not exist on my computer.
I was searching a preferendes folder and changes the permissions of some of the included files to "read and write". The whole preferende folder i could not change to "read and write" because the system says I have no rights. I didn't know how I can change this.
I have not acitve the autoactivation plugin of my fontmanager suitcase 6.
On El Capitan its not possible to delete the system fonts like its possible e.g. on mountain lion / snowleopard etc.
OSX is updated, all Programms are updated.
Thanks for your help! ;-)
CS5 is unsupported under El Capitan.
You are on your own, unfortunately.