One of my favorites is Voyager's season 4 "Scientific Method". I thought that episode ROCKED as far as Sci-fi goes. In it there are aliens that cannot be seen by Voyager's crew that are performing scientific experiments on them. The sight of Janeway with aliens sticking needles in her head!!! OMG! It was deeply disturbing and a great sci-fi show for me.
But isn't that pretty much the plot of TNG's 'Schisms'?
For me... it's Time's Arrow. A future event leading to a past event that is needed for said future to unfold!
Sort of... i mean, both were about aliens performing experiments on the crew, (and i had forgotten Schisms which was soooo good), but the thought of the crew being awake and walking around with these invisible THINGS sticking out of them in VOY....eeek! But yeah, Schisms WAS great sci-fi!