Actually, flying through liquid nitrogen would freeze your ship because even though space is cold, it's a very good insulator. The only way ships can dump waste heat in space is through radiation, which is the least effective form of heat transfer. In contact with liquid nitrogen, conduction and convection are possible, meaning that the ship's heat is dumped far faster than it was designed to do. This messes up the environmental systems of the ship, not to mention causes the metal hull to shrink and seriously damage itself. So within a very short time, you're in a dead ship freezing to death because the heatsinks on your ship have suddenly gotten much much better at their job, too good in fact, and kill both you and your ship.
Or maybe your cockpit windows shatter due to the clear material shrinking (or just due to the incredible temperature gradient) and you drown.