Thanks Tim,
So I feel a little silly. There was a loose wire and when reconnected to the batter terminal that got all the warning lights to go off. Cleaning the battery terminal hook ups really well resolved the not holding charge or not charging. Starts and runs great now.
The white blue wire and white wire are still hot.
I have that section of the wiring that I cut out form my parts van before I had to send it to the wrecker. It would seem that putting that in might resolve it. One of my friends thought that the heat was likely from corrosion causing resistance in the join in the wire where the heat is.