Two things:BotW from JNUSTool: 9.82 GB in 260 files. Installs perfectly.
BotW, the above .app files decrypted with Cdecrypt with two folders renamed, then repacked with NUSPacker: 9.79 GB in 27 files. Fails to install, error code 0xFFFBFFFB.
...It's always possible that Cdecrypt is spitting up wrong "meta", "code" and "content" folders from the JNUSTool files, and it's not NUSPacker's fault.
Extract your new package and compare the output to your input, file for file, so you can tell if it was packed the way you expected.
Extract both with jnustool (by placing the installs - one at a time of course - in tmp_0005000xxxxxxxx under your jnustool directory.) Compare those results to the cdecrypt ones.