Okay it looks like you have run into the raw firewire permissions error.
First, let's try to get your ubuntustudio-audio package installed properly. Go to the terminal and make sure apt-get has finished installing all the packages you have previously asked it to:
Then once it's finished, manually configure the ubuntustudio-audio package (the last command may have done this already, but it won't hurt to do it again for safety's sake)
sudo apt-get install -f
Now go ahead and try the jackd -r -dfreebob again, if you get the same "operation not permitted" error then do the one of the two following operations:
sudo dpkg -reconfigure ubuntustudio-audio
1) GUI method (easier for beginners)
-Open System->Administration->Ubuntu Studio Controls
-Check the box marked "Enable raw1394"
-(optional step) while you're there it's advisable to turn on memlock and adjust it to about 90% or so (mine's @ 95%)
2) Command Line method (helps gain better understanding of the process, and makes sure things are done properly)
-Open a terminal and do
-Find the lines that read something similar to:
sudo gedit /etc/udev/rules.d/40-permissions.rules
-Change it to:
-Save the file, and exit gedit
Now you should be able to get jackd running. If you still get an error when you execute 'jackd -r -dfreebob', please post that error. If it's the same permissions error, then try rebooting (I don't think a reboot is required but it may be to refresh the udev rules).
If you do have jackd running from command line, then try getting it running via qjackctl (aka. jack control); if that gives you an error then you need to adjust your settings in qjackctl's settings window.
Hopefully this all helps; post back with how far you get.