Because the JavaScript will be running from a different origin - the Same Origin Policy will prevent example.org from grabbing the cookies from bank.example.com.
Example.org does not even have to have been compromised. A Man-In-The-Middle attacker (let's call her Mallory) could have intercepted a connection from the victim (let's call him Bob) to the benign site Bob visits over plain http. e.g. http://example.org.
Mallory injects some JavaScript into the responses received from example.org which will run in Bob's browser. Because this JavaScript is received from example.org in the eyes of the browser, this JavaScript cannot access cookies on bank.example.com. Mallory cannot manipulate traffic to bank.example.com because this connection uses https, and all cookies are marked secure and/or HSTS is used.
However, using the CRIME attack, Mallory can use the JavaScript to send requests from example.org to bank.example.com and then monitor the network traffic. With enough traffic sent to bank.example.com, Bob's cookie values can be determined.