Update: So I just got back into this, as life got in the way.
So after reading Pizza Guys manual, (very informative, thanks) I learned I was probably not keeping with the program completely, probably had doors or trunk open at times, and so on. My thinking/or lack of, was since the Battery was not connected, it didnt matter, but it most certainly does. I am a fair Mechanic (Millwright is my Trade), but never fully appreciated what happens in those circuits.
So about a week ago, as I got started I noticed the Amp draw was 1/2 of what it was, about 5A. I chalked some of that on myself maybe. My next plan was to remove the Starter thinking the issue was either the solenoid, or a simple short in the still working motor (not that I have ever seen such a thing) so I checked out Big Dads video and was preparing for the job. Now I currently have the car on Ramps, and it doesnt give you much room to work, so I was planning to raise it up in the rear as well.
So yesterday I jacked up the Passenger Rear, and as I walked around the car, (my Fluke meter still hooked up) is now reading just 1A. I rechecked all my connections. And after replacing the Jack with a Stand, I got under the car, got a better look at the cables to the Starter, but still nothing jumped out at me. I mean everything looks like it did when it came off the show room floor.
So I thought maybe I would check the fuses again, sure enough when I pull Fuse 5, 25A, the one for the "Top Control" the current dropped to 0.15A, 3 min later it was down to 0.03A. Oddly enough, when I replaced the 25A fuse, it went back up, but only to 0.15A then 3 min later it was back to 0.03. The only other fuse that registered any change was a 10A (#13 I think) that runs the Alarm, inside lights and Trunk light. I have tried to bring about the original issue, because I know better then to think this problem is solved. So my plan was to drive it to work today, but the Top would not go down, it unlatches, the pump runs for about 15 seconds, but no movement from the unlatched position. So when I get home, lord only knows what I will find. The hydraulics on this car are dry as a bone, and a quick look this morn seems to suggest they still are. I cycled the Top when originally looking for this problem, maybe one of the wires from the Fuse panel to the Top motor is an issue? I have had the Top act this way once before, not go down, then the next day when planning to troubleshoot it have it work just fine?
BTW, I have no desire to drive this car with the Top up, thats why I didnt just drive it anyway.
For the record I havent checked the Alarm system yet.
Just wanted to keep you folks updated, and let you know how much I appreciate your help.