Tom shows up in Imzadi II where he is freed and then summarily reimprisoned by story's end. As far as I recall he isn't dead there.
He also shows up in the Slings & Arrows short stories, in something that is a little incongruous with Imzadi.
Thomas Riker also shows up in the future parts of the Millenium
Trilogy as a Captain in one of the Starfleet's.