You may see Samus's actions as an act of cowardice unbefitting of her. Or you might consider them an act of helplessness unbefitting of her. Regardless, of her unbefitting motives behind her actions, she now has to live with it, and Nack has no intentions of making t easy for her.
Forget "losing it" just get off the freakin' planet!
That is unless they haven't entirely given up on the idea of fighting...
Fleeing the planet wouldn't help them, that Lavos/X thing can turn into Ridley and Ridley can flying into space and move like a freaking ship once in it.
This reminds me of the no suit section of Zero Mission, that level involved mostly running, hiding, and tricking the pirates into shooting each other. I'm sure if Nack gives her back her suit she'd be a little more willing to fight, and maybe the X queen there can use her magic to revive the Chrono Trigger cast, and/or put Duo back in his body...I hope his body wasn't destroyed, it was just sitting there 0_0