That's one annoying crisis.
Morale - "The new fuel" as Jopi said at some point. Without the Pegasus expansion this would be a nobrainer, go for morale, XO me back into the office before it's my turn again, and hopefully I draw an inspirational speech to get morale back up.
Fuel was a rather dire resource to lose as we have 8 fuel and destination cards tend to lose slightly less than 1 fuel per distance (on average, depends on what destinations are chosen of course).
In the expansion however fuel has become less of an issue. Not many crisis cards lose us fuel and the required distance is reduced to 7, making the target easier to hit.
Morale, on the other hand .. plenty of NC crisis cards hit morale. So many that Jopi was desperate to conserve morale last game, as in game 3 morale became rather low. That's what lost us the game in the end. (Well, that, and Jacob doing a triple-crisis-whammy at a time that nobody had any cards to play into them anymore

)
If we choose morale we lose an XO and whatever card I need to lose to move back into the presidents office at a minimum, plus possibly a strategic planning for an inspirational speech. (Which would then have a decent chance to get us our morale back, though.)
Alternatively you could leave me in sickbay and I lose 3 cards on my turn draw as well as the card required to move back into the president's office. Plus the strat planning, etc.
Speaking of which:
## Draw TAC for my extra Baltar crisis skill draw please
If we choose fuel we lose a resource that is harder to regain, but is also less often targeted by crisis. The raptor is not really easily replaceble either. There are one or two crisis and maybe one destination that lets us regain it, but that's about it.
On the upside raptors rarely run out to begin with
Honestly there is a case for both choices. Both of them are annoyingly bad. ;-)