Too many to list, but my favorite non shooter (as it's easy to toss out DOOM, Wolf3d, Duke3D, Rise of the Triad, etc) would be the talkie CD version of Indiana Jones and the Fate of Atlantis (which I still own with the box and the couple manual sheets too believe it or not!)
Beyond that the older Apogee stuff like Commander Keen and Duke Nukem 1 and 2 were great. Epic before being graphics whores did wonderful work with Silverball(pinball) along with the Epic Pinball table packages. I remember having fun with a space top down adventure/trading game called Solar Winds. Wing Commander 1 and 2 w/all those addons, same with Xwing and Tie Fighter and their packs were unbeatable in quality for the genre too. M1 Abrams Tank simulator was like early polygons but fairly accurate and bad ass stuff too. A good bit of the arcade/nes ported stuff was fun to mess with like Gauntlet 2 or Simpsons the Arcade Game.