I was just reading through this thread. First, I'm sorry for you're continued issues. There is a reason why LS moved away from those Shibaura engines. That doesn't help you though. I'm thinking that you might actually have a plugged up DPF. Though the temp sensor could also be at fault. For that fact, many things could be the issue. We need to methodically diagnose the issue, not simply shotgun issues. Start with the simple and move to the complex. Your tractor has a looping idle no matter what you're doing. It will not complete a regen cycle, it goes into limp mode. You have already replaced the fuel, filters, etc. Checked battery cables, and loose wires. Thats the simple and obvious, but didn't fix the issue. Lets move on.
At first glance, the pin hole in the fuel line might sound good. But typically that issue will kill the tractor and it wont start again. When a diesel sucks air, even a little, it dies. That was my first call to my dealer (Spokane Cascade Tractor). Tractor suddenly died while working, my basic diagnostics didnt pan out (I did check the fuel line, no leaks), called the dealer. They came out, we spent several hours diagnosing (with his laptop scanner tool too) trying to find the issue. It wasnt until the mechanic accidently touched the fuel line that we noticed a single small drip of fuel coming from it. Replaced the line, primed, and not had an issue since.
Eliminating the fuel leak sucking air, lets look at the ECT. The ECT or the Engine Coolant Temperature Sensor is located where the top radiator hose enters the engine block on your tractor. It is part number 40283508 from LS. Before ordering, you can check it for continuity. There should be a range of resistance based on actual engine temp that it will show. You will need an ohm meter, an IR thermometer, and a service manual. That might be an issue. If you don't know the resistance range for the coolant temp, how would you know what ohms are good? But, you can at least see if you're getting resistance. Unplug your ECT, put your meter on ohms, and probe the blades. Some resistance is good, a ton is bad, and none is bad. For example: the service manual for my tractor's ECT specifies the resistance to be 9.675 ohms at -10C to .148 ohms at 110C. Yours are probably similar. Your ECU should be throwing a code on your dash if your ECT is acting up. However, ECT's are cheap, and yours appears to be a chinch to replace. Simply replace it if you feel the need.
However, I suspect your tractor might have a plugged up DPF (among other DPF related issues such as your ACV (Air Control Valve) on the DPF system that is malfunctioning not regulating the proper amount of air/fuel mixture into the DPF during regen. Could be the DPF temp sensor being faulty (Ohm range on mine: 170.2 at -40C 849.7 at 1,000C EGT). If this is the case, a plugged DPF, you'll need to have it serviced at the dealer. I'm sorry. There are videos on YT that show how to clean them, but I cannot recommend them, and playing with them can seriously screw up your engine. Replacing sensors is one thing, taking the filter off and pressure washing it is another.
Before doing anything, give Cascade Tractor a call in Spokane and ask for the service manual for your tractor. If they can get it (which I'm sure they will, just depends on how much money), it will save you a ton of time an guess work. These government regulations on these tractors suck. It causes more issues that they are worth. But lets get you up and running, then complain.