GodMode9 can inject arbitrary data into the FIRM partitions. You can also hex-edit the RAW data.
The question here is: Why? I wouldn't know of any effect.
And as a friendly warning: If you, for whatever reason,
choose to do such things on SysNAND, have a full backup and an ntrboot cart ready. The linked thread shows what
will 
happen if you play around with SysNAND Virtual. If GodMode9 turns the screen red and demands input of a random dpad sequence, this means you should probably stop what you are doing.