I personally don't think science should be involved with R&D at all. Taking soil samples doesn't improve your ability to make rockets - R&D is something you pay engineers to do. I'd rather see science implemented as something you 'have to do' in the final game, such that in order to maintain a specific budget (I'm talking money here) you'd have to do a certain amount of science in a specific time. This is how a real space program works - Government gives the program money, expecting a certain yield of scientific progress. The government doesn't care about how the space program achieves that, and the program is free to allocate money to R&D as they see fit.