Some suggestions

Published on Tuesday, May 3, 2016 By ProkhorZakharov In Offworld Trading Company

Have a visual cue that a building is losing money. A red exclamation mark similar to the "no inputs" indicator would work.
It's rather counter-intuitive that you can place a building on top of pirates to destroy them. It's also the kind of thing that's incredibly frustrating to new players - you invested in pirates, and were counting on the resources they stole, then someone gets rid of them in a way you didn't think possible and had no way of anticipating. Having pirates block the placement of buildings would make more sense, and add interesting strategic opportunities. I don't think it would be a balance problem.
It's also counter-intuitive that trace resources are worth 0.25 (compared to 1, 1.5, and 2 for low, medium, and high), making nuking medium resources the best option. Having them be worth 0.5 would fit the pattern, while also making nukes less devastating to scavengers and newer players. On the other hand, it would make it more difficult to use nukes to establish a resource monopoly.
Speaking of nukes, it's not obvious where the nukes are landing. An animation (or a more obvious animation, if there's already one I haven't noticed) would be nice.
The power surge/EMP ongoing animation on your disabled buildings is difficult to notice.
The hacker array takes so damned long to get online. It's by far the least popular advanced building - making it either build or hack faster would go a long way towards making it more useful.