For what it's worth it sure sounds like water in the fuel. I would start with the filter drain that Spudgunner mentioned. I keep extra filters in the TC's. For whatever reason, this last two seasons we have been battling a "water in fuel" issue. Unfortunately, we only have one source for diesel in our area. I keep threatening to buy my own above ground tank so I more control over the fuel and costs.
A couple of other suggestions; 1) This season we have been following a strict rule of "always top off tank at the end of the day/shift" which is helping by preventing condensation from forming in the tanks at night. 2) When you do use the filter drain don't let it run/drain for an extended period of time. This will prevent too much air from entering the filter via the drain. 3) If you do replace the filter, make sure you actually fill the new filter completely with diesel before you install it. For us, this has made it possible to restart the TC's without having to purge the system of air. 4) Lastly, we are "over treating" the fuel with addatives that supposedly remove any water.
From Spudgunners comments, it appears that those of you with C & D series have a much easier time getting at the filter. on my B series you have to get under the TC and remove the large skid plate to even get to the filter. Hope this helps!
Tim