I'd like to know how to delete my own post since I figured most of it out. I now know WHERE each cable goes thanks to a youtube video that showed labels on each PSU 6-pin connector. I have it mounted upside down per my case and didn't see them.
So basically I just want to know why my 6-pin pci-e power connectors have only 4 wires. There 6 prongs at one end and only 4 on the other.
If it has 6 prongs at one end (the side that plugs into the PSU) and 4 on the other, it's not likely used for your GPU.
There are 2 types of cables that meet that description, one is used to go to your motherboard, and is not always used, depending on the motherboard, the other is a molex used mostly for legacy hardware and fans.