User blog comment:Relite25/What do the people want in a dlc?/@comment-24.214.168.51-20120815140555/@comment-146.115.123.19-20120815173322

The Dwemer's dissappearance is well explained in the lore. Read "The Rise and Fall of the Tribunal" (the sections relevant to Dwemer, anyway). They were using the Heart of Lorkhan to make themselves immortal. Somehow, unlike the Chimer, they failed and all dissappeared. The fact that the Dunmer took Red Mountain and NW Morrowind collaborates this. Additional proof can be found in treatisies on the Falmer and Dwemer themselves.

There are no remains because they didn't die... they dissappeared. In any case, even if there were corpses at one point, it has been thousands of years.

Really, the Dwemer backstory is incredibly well-documented.