what's happening is you're shrinking footage to fit the 4:3 screen that would otherwise be looking fine in its full 16:9 form where the outer edges are set to interlace in the correct pixel grid and would even be trimmed off on a TV.
This grid of pixels in actual footage what was captured in which resolution to what you are cutting in the timeline not perfectly lining up to resulting in the flickering.
Use the earlier suggestion to create an overlaying black bars that crop everything underneath it to shave off the top and bottom 1 or 2 pixels. Or use the flicker removal effect for the clip/s that are causing the most problems. Keep in mind also that a Computer montior will show up things that won't on a CRT/LCD/Plasma TV due to interlacing and how the PC software deals with it.
- Jon ;)
How many editors does it take to change a light bulb?
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