Hello,
This question is probably best suited for the Cuckoo team, they are an awesome set of guys and they will be happy to address your questions...
As to your questions with regards to our setup...
is it optimized to run common apps like browsers,email programs or media players?
Cuckoo will effectively run any kind of program, be it a legit piece of software or some malware. Having said this, if you submit a browser installer to our service, our setup will not know how to run through the setup process (will not click on the next buttons and will not simulate human interaction with the program). If you had installed the browser and different progams before taking the snapshot of your virtual machine, then you can use them via scripting, launch them against specific websites, etc.
If so is it fairly simple to configure it save certain process out the SB like history,bookmarks etc?
The cuckoo code is open source, you can tweak it at your own will to perform more fine grained tasks. It allows you to run scripts in addition to the malware that you will be running, these scripts could have access to the history, bookmarks, etc.
How deep does it integrate with the Windows 64bit kernel?
It does not integrate with the kernel at all. The system modifications are recorded through DLL injection+API hooking, this is a user-land type of monitoring.
And lastly does it deny admin rights by default in the Windows version.
I am unaware of how the latest versions of cuckoo work, our setup runs on Windows XP machines, so this is not something we have had to fight with.
Regards.