Most likely what's happening here is a thermal effect or the machine pushing off the earth's magnetic field. Keep in mind that these things are very difficult to measure due to the tiny amount of thrust they may or may not produce. According to this study 1.2mN was measured, which is about the same amount of force as gravity exerts on 6-7 grains of rice (according to my back-of-the napkin calculation).
If this were real it would be absolutely huge, and destroy just about all of modern physics. It isn't just that we believe in conservation of momentum because we don't know of any way to break it, the equations we're using to describe things don't work without it.
This paper has a number of flaws. For example, the test really needed to be performed inside of a vaccuum to have any credibility at all, and whether that was the case was not made clear.
TL;DR It's most likely bunk, unfortunately, but it would be very revolutionary if true