Thanks Mark, yeah one sequence i have does move quite fast, doesn't have any motion blurring applied, and it does indeed cause that effect. Normally i would apply motion blurring, however i was in a real hurry and didn't want the render to take overly long.
The main problem I have found however was being caused by frame rate differences. I was rendering out the frames from LW at 30fps, my knowledge of Premier wasn't great so i was simply choosing a default setting of PAL video for windows at 25fps. Then, to get it to work at 30 fps, i was using the option of 'interpret footage at 30fps' from the advanced menu, thinking this would sort it.
This was of course wrong, i changed my default settings to NTSC video for windows, at 29.97fps this was fine and seemed to get rid of most of the stuttering. Thanks for your help!