The first image shows the left side behind the cover. Right off the bat, i am not seeing the terminal box, but i do see some sort of capacitor...The smaller circle is where i came across speaker wire in my wiring harness.

Notice the junction box. Looks like it was taken out and not put back in correctly.
In the next photo, you can see the turn signal flasher with a wire cut.. don't know if that is a big deal...
And in the following photo, i took the rectifier out (the battery wasn't being charged, and would die eventually after a full charge) and saw this at the connector...looks like a connector got hot...
And finally, this is a picture from under the false tank where the fusebox should be. Notice them just bundled up. (Again, don't know if this is an issue or not... just seemed odd to me)
Increasingly frustrated, i humbly ask for opinions, thoughts, etc.