Report back with the codec details of your file, use the programs below
For Mac http://mediainfo.massanti.com/
Post screen shots of your project and output settings
Read Bill Hunt on editing a VOB/MPG file http://forums.adobe.com/thread/464549
Make sure the fields in the timeline are set to upper.
Also the output is to be upper or progressive.
Same thing happens to my footage, both in previous versions of PPro and now with my latest project in PPro CC2014. I came here searching for an answer.
Here is my example: I have imported a modified piece of footage into my project. A clip that has been scaled from 4k (24p) to 1080HD, and sped up 1000 x and then exported as 29.97p for my 29.97p project. With this asset imported and then a title graphic over top, plays nicely and I'm ready to export. The first time I exported my whole sequence with all effects (mostly Adobe Speed Grade CC2014) in 1080HD H.264, 29.97p, 15mbps VBR, 2 pass, max BR = 15mbps, the video looked fine.
When I made a few changes to title graphics (not over the footage in question) and then exported again the modified piece of footage now has this bouncy effect, like I've seen before in imported assets in my projects.
It seems to happen when there is a graphic, or text layer over the footage, but it's not consistent. It's happened several times when the first version was fine, but something minor was modified in the sequence and the second pass contained bouncy footage. Driving me mad, as there doesn't seem to be a way around it. I've copy/pasted the sequence into a new timeline incase that old sequence was corrupt.
Anyone out there have a clue?