The Efficient Starbase Maintenance doesn't show how much it reduces upkeep costs and it doens't have any effect. Also I noticed when I adopted Secure Shipping from Diplomacy Tradition it had no effect on trade protection, however I don't know if this mod is the problem I didn't pay attention to this stuff before but since 2.2 came out I'm checking everything with all the new mods i'm playing with.

I'm looking into the bugs you note but I'm moderately confident that this mod is not the issue.

This mod only overwrites the Starbase building (now the 2.2 version) file but I didn't change anything beyond prices and resource output, so thats almost definetly not the issue. This Mod also adds another building (Hydroponics Bay II) via a 2nd file but any bugs and should thanks to the compartmented nature be limited to that building or at maximum its display ingame.

...I have run into weird bugs with my other mod too. I thought it (adds megastructures) removes the display of Megastructure Effects (the new ones have some empire wide effects) in the Megastructure window but it turns out, that if you have a ruined megastructure generally (with or without my mod) and open its window once, that means for the rest of that session megastructure effects aren't displayed.

There are definitely some weird bugs in the current 2.2 build. But I'll look into the stuff you mentioned.

I just realized that it might be NCS2 SEASON 2 - Finale - Mod version 2.5x. I looked at your pics and it didn't have the extra slots and I read over the ncs mod. Sorry for any inconvienace, Thank you for looking into it. I'll have to talk to the makers of NCS about the issue.

No it doesn't ;)

And I'm not encountering issues along the lines of trade routes not working. So its probably due to another mod or a game bug.

Thank you for the effort I'm pretty sure its NCS2 Season 2.