Dev, I like the overall game system, but I think it will need rework again at some point as dev will add more characters that can breed more "individual" to the outside world. At the moment, 2 breeders are enough for current combat rework because players can only send 5 "individual" out per deployment.
As more breeders are eventually added, I would like to suggest making the combat more large-scale and automated; there's more reasons for players to get more breeders out of the cryochamber and less hassle because players don't have to issue action for every single unit. I'm thinking of something more of forming a group of "individual" into one "battalion" and have it duke it out by depleting out each other's numbers. The "battalion" will suffer losses that needs to be replaced, and they could be improved with research to boost their stats (damage, hp, etc.). Side note, I think medic is unnecessary because of numbers and would be hilarious they revive the dead members.
Then there's the food (and gems) issue, I feel like the each terraformers and engineer output can be boosted if they are provided "crews" from recruitable "individual" because we will have so many breeders anyway (Terraformer give flat value + each "individual" give bonus percentage).
Any chance we will get a world map to conquer later, like eliminating the aliens from one sector and build an outpost there, because it wouldn't make sense to have more than one worker and waitress now since one each of them already maintain the main base. Terraformers & engineers (and their crews) could also be distributed among the outposts instead of cramped in the main base. Could work with scientist as well since you did say the scientists are going to research the planet and artifacts. Which mean more reason to introduce and unlock more worker to get the construction projects done and maintaining it.
Those are... what I kind of expecting out of this game, but I hope you finish it well whichever creative decision you'll take. Keep up the good work, I'm looking forward to this game.