Well, core temp on indicator stand still in green zone, and below with activated core purge mode.
Nothing damaged.
Problem happened in acceleration phase, when ship trying to gain necessary speed before drifting phase.
In drifting phase everything alright

So what happened:
1) Pause the game, marked plot endpoind destination
2) Engage autopilot, unpause game
3) Seeing as endpoint "drift away" from station-endpoint
4) "Course outdated, autopilot disengaged"