What I was thinking about RE: bars was more about multi-part missions in the vein of Red Planet that sort of sneak up on the player, where Mission #1 is fairly above-board and seems clean enough, Mission #2 is a little sketchy and maybe more dangerous in a telling way, and Mission #3 shows that you're clearly into something illegal or bad.
So yeah, high-risk, high reward but also simply unpredictable. You might get overpaid for an easy mission, you might get underpaid for a dangerous one, you might get cheated, ripped off or set up, as you said, but mostly just missions that are about more than just doing some stuff for credits or goodies, that make you feel like you're part of a story or that require you to read the text carefully and make inferences and guesses and use your knowledge of the game universe to figure things out.