Well finally got it done, had to wait for it to cool off some. It was a lot of work but it is definitely worth it. I am now getting all the power to the wheels, some reason EGTs are lower, not sure why but I am happy with that.
So here is my two cents.
The above YouTube video is right on and has a lot of great advice. His wiring for the clutch safety and the reverse lights is great.
Only thing I can add is buy a new floor shift boot and use the old one for a template. Screw hole alignment for shifter boot is already in the floor pan, there are dimples in the sheet metal where you need to drill.
THIS IS ONLY FOR THE NV5600,
Use the inside shifter boot place it on a piece of thick paper, mark the outside of the boot and punch the screw holes through the paper. Cut the paper on the out line. I used the same sheet metal screws to hold the paper in place on the under side of the boot side that I attached the new boot with. use a flashlight through the top of the shifter boot and that will show you where to draw/cut the inside line of the boot template. Line up the Template screw holes with the dimples in the floor, mark the locations with a marker, ALL holes in the template will lineup with the correct dimples in the floor. using the same screws you are going to attach the inside shifter boot attach your template to the floor and mark the center cut out area. Note I used a jigsaw and a Dremel with cut disks. Take your time, measure twice. Also the stamping in the floor plan that looks like where to cut is off set a little where the shifter hole really needs to be and is too small. you will not be able to get the transmission shifter base mount through without cutting more. I also test fitted with the new shifter boot for the correct fit. When it fit correctly I painted the new shifter hole so it would not rust.
Hope this helps
Kyle
Attention: TDR Forum Junkies 
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