Yep, the AGPL says nothing about HOW you use the code. Commercial or otherwise. You simply must make any changes you make to the code available to those that use it. This is where the aGPL differs slightly from the GPL. If the code was GPL licensed, then because you are not "distributing" the web part of the application, you would not be required to make your changes available. Being aGPL - you ARE required to make your changes available...
Basically, if you change the code you are under obligation to make those changes available to anyone using your application. And if you really want to be considered a nice guy you would also contribute those changes back here
Feel free to use Open-AudIT v2 (OAv2) in any commercial, non-commercial, charity or whatever setting you like.
And yes, there is a donate button on the homepage. I use donations to fund the website and domain name(s). (I have .org, .com, etc).