This is some great stuff! I loved the idea of different systems being knocked offline in battle and having to prioritize which systems go online to meet the situation, ensuring that you're meeting a quota of available energy. I could imagine an expansion of the system where the player is deciding on which coordinates to visit, weighing risks and possible benefits of randomized encounters.
Getting upgrades for each encounter completion felt good, and I could see more upgrades being added in the future. The atmosphere was well executed, and the idea of being the lone pilot behind enemy lines is a tense premise that is filled with potential if you chose to continue development.
Great work!