Today I played the Raiders Retreat extra mission, and after completing the objective, a radio voice said I could jump to hyperspace when ready. However, the hyperspace jump button didn't appear on the screen, and pressing 'J' didn't initiate hyperspace. I couldn't find way to trigger the hyperspace jump to finalize the mission and get the achievement, so I saved the game, quit, and re-loaded it. After that, the hyperspace jump button appeared, and I was able to finish the mission and get the achievement for it.
Also, likewise with needing to reset the HUD each new game, to set it to no-HUD mode, the same issue is present regarding pressing 'TAB' to cycle through ship highlights, to disable them, each new game. The setting isn't remembered between games. Maybe, there could be a HUD section in the settings menu, to configure the default HUD setup?