When Morpheus is in the government building after being caught by the agents, there are lots of scenes of a laptop on a desk behind him to his right (viewers left), yet after Neo has killed all the agents from the helicopter, it does a wide scene of the whole room and there is clearly no laptop.
Cypher? I'm sure you mean morpheous. By this time Cypher had been shot by that plasma gun and probably thrown to the squidies. But just for reference the gun can be aimed...
Yeah, when I first saw that scene Neo seemed to be moving the gun wildly with no aim as if he just wanted to trash the place. It made you wonder how Morpheus didn't get hit.