The case I was not able to install some games is when I switched SD format it fucked up my system.
If you're going to use exFAT allow the system to install the drivers first before creating your emunand otherwise you're going to run into trouble installing things. Better just allow Hekate do all that work of preparing your SD (FAT32).
Also, use DB Installer in MTP mode to install your files. Its less likely to corrupt your files and much faster than other schemes.