I'm looking for a solution that could help me out automating the already opened application in Chrome web browser using Selenium and Python web driver. The issue is that the application is super secured, and if it is opened in incognito mode as Selenium tries to do, it sends special code on my phone. This defeats the whole purpose. Can someone provide a hacky way or any other work around/open source tool to automate the application.
Selenium doesn't start Chrome in incognito mode, It just creates a new and fresh profile in the temp folder. You could force Selenium to use the default profile or  you could launch Chrome with the debug port opened and the let Selenium connect to it. There is also a third way which is to preinstall the webdriver extension in Chrome. These are the only ways I've encountered to automate Chrome with Selenium.
Selenium: How to work with already opened web application in Chrome