The main territory im treading onto that I'm lost in is stuff with the NAND. I should say i got a UNEEK+DI up and running with my serial made from ModMii, and was able to access the shop channel. If I could figure out how to use that NAND for the Wii U transfer it would solve all my problems, as I'm not too concerned with the saves on the regular NAND.
UPDATE: I just installed a completely clean 4.3 NAND made using ohneschwanzenegger. going to see if this fixes all of my problems
UPDATE2: I got in the shop channel and figured everything out! Thanks everyone!