If they're pirated games, that's where they went: it only transfers legitimate games, at least as far as I remember, anyway.
And when you say SD card transfer, do you mean you swapped SD cards or did an actual system transfer along with the SD card transfer that you have the option of doing? If it's the former, there are instructions for transferring a system with A9LH+CFW installed that you need to follow, and you need to know how to transfer the SD card contents manually else nothing will work properly.
TL;DR this sounds like user error but you need to supply more details.
Make sure your SD card is set to Primary and not Logical, along with making sure it's FAT32 with a 32KB cluster size.
I transferred a new SD and had it set to Logical, it read the card as existing, but nothing showed up until I changed the type in easeuspartition manager.
Also make sure to copy all files from old sd to new.