About 15 hours now and off looking for a black hole with only 3 substantive complaints.
1) Maintenance tedium. So many things that need to be energized and replenished at regular intervals, and the knock-on of needing materials for that at all times.
2) Not bleak enough! Every planet has some life, they all "?" spots, and they all have sentinels, all systems have stations and random ships flying around, etc. No dead planets is, paradoxically, very boring.
3) Dogfighting is impossible. It requires sim-like precision in a game with very light and arcadey flight controls. Some of the matters of #1 are included here to make it even worse.
Like anyone I could come up with a list a mile long of tedious things and general oddities, but 95% of it is stuff that could either be patched or was a very deliberate game balance thing so there's no point in questioning it. Plenty of it is bugs yet, too, I'm sure. It's a massive accomplishment to make a game like this and there are so many awesome things going on that I'm still wowed overall. Love the Souls-type passive story and lore the player needs to go seek out in particular.
Ugh, and storage issues are already a pain. (Part of #1)