captain,
Don't really have a solution for your jumping TOD lights other than to double check that all four tires are all inflated to the same PSI. I see you got new tires, but were they new or new to you? The wear on all four tire must be the same for the TOD to be happy. Does the light jump happen on any hill, or just one in particular? I ask because if there is gravel on the one hill that this happens on it could be the TOD doing it's job as the tires slip on the gravel. Just a thought.
Now to your transmission issue. Wish you would have posted something here when it went out (maybe you did and I just missed it), but the first shop could have screwed up your transmission and could have been on the hook to replace it. Our transmissions have a VERY specific set of steps that need to happen when replacing the fluid. If the fluid was drained and then just replaced chances are it was low and your transmission would have killed itself due to lack of fluid. I can't find the instructions right now, I know LDUB has them readily available, but when replacing the transmission fluid the tranny has to be run through all the gears with the engine running (among a few other things) and fluid needs to be added as this happens. I'm guessing the fluid starts to fill into all the passages in the tranny and stays there so the initial tranny fill isn't enough to top the fluid off. Make sure that the shop that did the rebuild went through the same process or you'll grenade another transmission.
"The major difference between a thing that might go wrong and a thing that cannot possibly go wrong is that when a thing that cannot possibly go wrong goes wrong, it usually turns out to be impossible to get at or repair."
-Douglas Adams, Mostly Harmless