The Heavy Metal Wargaming site has some counters for use in starship games set in the Star Trek: The Next Generation universe.
Warhammer Star Trek is a fan-created modification of the Warhammer 40K rules. I ran across these when looking for Star Trek rules to use with my newly painted 15mm figures.
The classic Star Trek shuttlecraft Galileo is available as a free paper model.
Phaser Lock is a set of free wargames rules for starship combat in the Star Trek universe.
One Monk offers a set of paper miniatures for Star Trek adventures.