Intermittent trans failsafe message

[Jroc]

Before anyone offers the "use the search tool" answer, let me say that I've read through 4 or 5 threads covering similar issues and none of them were quite like mine. That being out of the way, my situation is as follows.

after cresting a sharp hill, I drove through a long deep puddle at about 50 mph. It was unavoidable(the puddle stretched across both lanes and filled the ditches) and there wasn't enough room, between the crest of the hill and the beginning of the puddle to shave any real speed, so I was along for the ride.

About mid-way through, the engine died and I coasted it onto the side of the road. The engine didn't suck water thankfully, but the dme got drenched and the car needed a few days, to dry out. Once the dme dried out, I discovered that the battery died, so I trickled that to full strength, cleaned out as many electrical connections as I thought were relevant, in the engine bay and she fired right up, no problem.

This brings us to the current problem, which is that despite the battery being 100% charged and in good health and the charging system testing out as good; I have an intermittent trans failsafe message displaying. Strangely though, the vehicle has worked fine twice, without displaying the message, but re-displayed it after and every day since.

my question now is, if the charging system is healthy and I know that the battery is fine and fully charged, what else might cause this problem? At first I thought that the tcm just needed more time to dry out, but with the problem returning after randomly going away, I no longer think that's it.

I should probably mention that it will go into failsafe mode, regardless of how recently I drove it, what time of day it is, weather I'm manually shifting or not and regardless of how slowly, I feed in throttle input.

If any of you have had a similar experience, please share your results!