Doesn't yellow mean inactive and if they're green it's passive? If yellow it means to get the speed boost you have to click on the ability and it'll last for (such and such time, 5mins, whatever, then has to recharge for another set time).
Hover over the crewmember with the special ability, or the ability itself and it'll tell you if it's passive. If passive you shouldn't have to do anything. If not, it means to activate the ability you should click it.
Edit: Color: regarding how it appears in the ability bar not the crew screen. They're all green on crew screen IIRC.
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