You can detect through code that if the app is running on a jail broken device or not. Through that way you can pop up an alert and close the app. You can do whatever you want to do. Here is a tutorial for it:
http://thwart-ipa-cracks.blogspot.com/2008/11/detection.html
and here is a Stack Overflow post:
How do I detect that an iOS app is running on a jailbroken phone?
Also, if you want a complete solution, you can see in tapjoy sdk code. They are detecting jailbroken iPhone. Here is tapjoy URL https://www.tapjoy.com/