If I understand, you chose to "agree to take part in the development of" their base. As far as I can tell, this allows you to add/remove equipment and use your experience to train their crew. And that is all.
Investing in projects at business stations causes the creation of a new station. The cost of each successive station (of the same type?) increases (doubles?).
The player does not benefit financially from either option. I even put a Gripper on one to see if they would grab nearby loot thereby repaying me somewhat for all my expenses. They didn't.
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