Vengeance multiball: Hit the ship enough times and it'll open up. Hit it again to get a second ball. Hit ship again for multiball
Timing your shot for Warp 9.1 or 9.9 to coincide with any of the multiballs can pay off big with double scoring and big jackpots.
Klingon multiball: Complete green standups under side ramp to light locks. Lock ball in Enterprise of left saucer.
Modes can be completed during MB, so starting a mode before cashing MB is a solid strategy (esp. for Klingon, which covers all main shots)
Light Black Hole by hitting all orange matter targets. Hit lit Black Hole target during multiball to add a ball.
You can safely and consistently backhand the left spinner shot on the fly
The better you do in each Level One mode, the more points each mode's second shot will be in Kobayahsi Maru - up to 7.5 Million per shot.
Completing the same mode 3 times adds a permanent 2X multiplier to one of the main shots.
Completing the two light blue stand-up targets on the lower left of the game light Rescue.
Any shot that is part of a combo scores 2x. Big for Kobayashi (max 15M), Klingon Super JP (6.5M->12.5M) and defeating Vengeance (5M->10M).