When examining Sisko's phaser Shel-la mentioned the Ennis stopped using directed energy weapons centuries ago, because they didn't do enough physical damage. Yet the weapons being used by both the Ennis and Nol-Ennis are directed energy weapons.
The nacelle on the ground after the Yangtze Kiang crashed, does not correspond with the style the Runabouts have, but rather the nacelle from a Type-6 shuttlecraft.
In the opening, Commander Sisko is studying Major Kira's file on a computer view screen. He turns the view screen off, but the very visible outlines of the file text (as well as Major Kira's photo) can easily be discerned on the darkened screen, revealing it to be a transparency illuminated from behind and not a true computer screen image.