Just wondering if this is a known bug, I've flown my ship through every single portal twice over now, and each time my Science Officer tells me that I've failed and have to start again. I didn't fail, I just saw myself fly through the middle of every marker. But the game seems to have decided that it doesn't want me to make it myself, and so I end up having to use the autopilot feature that pops up after your second failed attempt.
I managed it manually last night. I have no idea how, as I was zigzagging everywhere (couldn't do it first time I played the mission). Was sure I missed the third one. After I got through the last one, I lost control and smashed into the sun. Luckily, I had told my crew to put Factor 1000 Sunblock on.