I can\'t believe that neither a Google or SO search has turned up a definitive answer or even much discussion for this, but:
Is it possible to edit/customize keyboar
The only thing that worked for me was to disable the shortcuts at the OS level (or change them to something else).
In OSX, you can go to System Preferences > keyboard > Keyboard Shortcuts and change/disable the shortcuts that you need to work in Chrome.
System Preferences > keyboard > Keyboard Shortcuts