Is there a way to set application-specific 'hot corners' in OS X?
CornerClick and AppleScript

Try creating an AppleScript that is triggered by CornerClick. Your AppleScript could check which application is front most and act accordingly.

Enhancement Request

Also, consider opening an enhancement request with CornerClick. The project is open source and your interest may help motivate the author, or other developers, to improve the product.