Sort and de-dupe without merging together?
Is there anyway to "sort and de-dupe" the entirety of my Wordlist folder without merging them together?

It's hard to explain what I exactly mean, hopefully someone understands, lol.
Hashcat utilities rli and rli2 might do what you want, although it will take several passes if you have multiple dictionary files.
Yes, rli2 is the way to go.

Make sure to

LC_ALL=C sort -u