Summed up: Decrypted partition => readable and "modifiable", has to be reencypted to reinject
Encrypted partition => not modifiable, but can be dumped anyway and reinjected
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The arm9loaderhax.bin is your CFW.
There is a payload on NAND too. This one will need to be updated. Updaters will be given for this. You won't need to compile them if you already have a9lhax installed.
thanks for explaining this, appreciate it