Ehhh, sky3DS is only good if you need to downgrade to 9.2. CFW is waaaay better, and free!!
I really think there was some kind of hiccup with your SD card when you created Emunand. I think this will work: use 3DS multi Emunand creator or Emunand Tool and inject your NAND.bin (from Section 2) into your Emunand. Then inject BBM or devmenu to Emunand and try it.
If it doesn't work then my last suggestion is to backup your SD card and then completely create a new Emunand from your NAND.bin using 3DS Multi Emunand Creator. This will completely format your SD card and hopefully solve the problem.
Well good news. i reinstalled EVERYTHING, installed bigblue on emunand, and it worked! I tested out a .cia game, and it installed just fine. Seems I did something wrong the first time I did it. Thanks alot for the help and the awesome tut!
now I only have one last problem. I tried installing another .cia game(pokemon y) and it didn't install saying there isn't enough space. I'm using my 2gb sd card, cause I returned the 32 gb. Does this mean I need to use a bigger sd after all?
I really think there was some kind of hiccup with your SD card when you created Emunand. I think this will work: use 3DS multi Emunand creator or Emunand Tool and inject your NAND.bin (from Section 2) into your Emunand. Then inject BBM or devmenu to Emunand and try it.