The gripes for me are too many to list (or remember) but the three that pop into my head are:
1) Riya's rather anomalous character that ultimately makes no sense narrative wise?
2) Galotian PCs cannot equip power armor... stolen off of a galotian? And you can either equip the power armor or the goo heart... but not both, despite again, both items being obtained from the same NPC?
3) Removing of incest due to Patreon/Mastercard rules.
The first bugs me because it is the most glaring inconsistency in terms of writing. The second bugs me because of its glaring illogical handling of items. The third bugs me because the system used to help the writers and coders do more by supporting them financially, ironically forces them to do less creatively. There might be more, I think I read somewhere about a hard fight or something but honestly, I stopped playing after the incest removable update, however long ago. I still have that old build so I can still play it but I just havn't had any motivation to return to the game, like at all.
I was thinking of returning when the new ship content is released and maybe even throwing my hat in the ring for some Ship AI content similar to Hand So but I'm hesitant of that due to the semi-progress over the past several months (year?). I will still throw in my token support, as I have from the beginning, and just because I am not a fan of Patreon, doesn't mean I will stop using it to support the writers and coders. Though even that has its limits and will likely end when I look at my monthly billing and go, "Oh yeah... forgot those guys existed."