ROM Hack [ASSISTANCE REQUIRED] Pokemon Y Randomizer as CIA/3DS

[pastaconsumer]

I've been at this all day, and can't wait to get it done! I am trying to make a randomized Pokemon Y CIA/3DS and... well, this is embarrassing... I can't quite figure out how to rebuild it as a CIA. Here's what I did:
I dumped my copy (digital) of Pokemon Y with Braindump
Did my edits with pk3DS
Got my modded RomFS (Named RomFS.romfs, I know... quite original...)

What I am wanting to do:
Give it a unique TitleID so it can co-exist with vanilla Pokemon Y
Edit the Banner with my altered logo
Edit the Header for the .3DS build
Rebuild for CIA and 3DS use
Possibly edit the Manual with the rules of the playthrough

Anyone have any ideas on how to do this?

EDIT: Here's my altered logo (It's not much different from stock)

Spoiler: Logo(s)

(They both say Hardcore Nuzlocke, as it is intended to be played as a nuzlocke with a few extras. Added the Manual edit idea if it is possible.)

 

[pastaconsumer]

Rebuilt it for HANS and it indeed works, however I still need to make a CIA/3DS version.

 

[Posghetti]

Most of what you want is here, I don't know much about it when it comes to this type of stuff, but hopefully that guide helped you somehow (:

 

[pastaconsumer]

Most of what you want is here, I don't know much about it when it comes to this type of stuff, but hopefully that guide helped you somehow (:

I tried this earlier today (yesterday) but to no avail. The files I got from it wouldn't open in pk3DS. Thank you for your help though!

 

[pastaconsumer]

Ok, so I have made some progress. I took a decrypted CIA and was able to alter the banner and icon... but the game hangs after the logo (The Nintendo 3DS logo).