Bug: Under "Settings", the option to turn off Progress Bar particle effects does not actually turn off the particle effects. My guess is that is what's contributing to other user's complaints of freezing and/or sluggish response.
Suggestions: I enjoyed the structure and strategy very much, but it may require more balancing or additional bosses. I was able to beat it in roughly 4 reincarnations, and when the time finally came to fight the Boss it was an instakill. Perhaps an option (via Research) to seek out the Boss if the player feels ready would be a nice feature.
Also, Research feels like its usefulness runs out almost immediately. Perhaps adding specific Research Topics that grant fractional multiplier bonuses and/or ultimately a lump Power Grid slot might flesh it out more.
All in all, great work!