Ok, I'm at a point where I have rxTools installed and runnable from ninjhax, emuNAND in place on my SD card (test shows RX3D under Settings), with backups of my card and sysNAND prior to that formatting from the Gateway launcher, and FBI injected into the H&S app (in emuNAND). Is there anything else I need to know before I go about installing CIAs? I'm a total noob when it comes to this level of 3DS stuff, as I've only messed with ninjhax, homebrew, and spoofing to let me onto the eShop from 9.2.
Here comes the flood....
Been reading up on a few things, and they say that emuNAND and sysNAND may be linked? What does it mean by that, how would I know if they are linked, and would that affect how CIAs are installed? Should I not do something after I install a CIA? Various threads say CIAs can be legit or universal (the latter being from pre-installed software instead of downloaded), but a legit can possibly be bannable from online because of a header conflict from 2 or more systems connected at the same time, as downloads and retail cards have their own unique signature? I can use a header from one of my own cards, and use that for all CIAs I'd install to prevent that, right? How would I go about doing that?
Also, I can move my SD card backup back onto my card after getting emuNAND set up? Would my backup conflict with anything? Since emuNAND is a copy of my sysNAND, it would recognize my purchases? What about CIAs I install (when in emuNAND)? Will they be shown in both locations (supposedly because of this linking)? I honestly would like to be able to have my legit purchases be detected only under sysNAND, while CIAs I install be detected only with emuNAND, just to keep them separate. Is that possible? I'm thinking such a thing may require that I have 2 SD cards for true separation. I can probably install custom themes to emuNAND at this point, making one more identifier to myself of which of the two I'm currently running.
Questions questions questions, some of which may be dumb/stupid, but I don't care, because I want to understand......