The fact that they left those 'guards' behind in stasis, always gave the impression they planned on coming back at one point. With Terok Nor, it was different. They didn't just leave the station, they left Bajor, intending to leave it alone. So they took whatever they thought they needed. The reason they didn't do that with Empok Nor, was so they could come back and re-start it in a heartbeat.
That, and the plot required it.