Alright so I (finally) finished doing all of my NAND backups, and created an emuMMC. When I click launch in Hekate I picked CFW (emuMMC) and a few splash loading screens display. After a few seconds I get an error saying:
Panic occurred while running Atmosphere.
Title ID: 010041544D530000
Error: std: :abort (0xFFE)
Report saved to /atmosphere/fatal_errors/report_086f63c4.bin
Press power to continue.
I am assuming I don't have the correct atmosphere files? I used the guide at
https://switch.homebrew.guide/index.html and used the SDSetup website to get the files for my SD card.
*edit*
Currently running the archive bit fixer as it has shown to help a few other people. Also I am using FAT32. Will report back when it's done.