This is stock and I am not sure why you would change all that.Ok, so here are the photos.
Two separate wires leave the battery terminal. Two are grouped together and pass through a black cylindrical bead (ferrite?) together, then separate. A single one passes through the other black bead.
All three go into the wire loom shield thing.
At the alternator, a black wire emerges from the wire loom along with a red one, which become a connector (?) on the alternator.
I think the other two red wires continue into the wire loom toward the starter.
So what am I looking at and how do I shop for a replacement?
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Your problem seems to be at the battery, you just need a battery cable, get it with the ends that match your battery.
If you have a side post get it for that.
Don't go into the might as well here, you will never end and you will not know what works and what doesn't.
One thing at a time.