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You can put them at the end of the script you're already using, since you're probably at least resizing - adjusting the frame rate does not inherently affect the frame size whatsoever in Avisynth. Since you said you're using Encore, it sounds to me like you're encoding each AVI as a separate title, in which case you're probably using one script per AVI. In that case, you'll need to add that to each script (assuming it's not already at the exact frame rate needed, if it's 23.976fps for NTSC or 25fps for PAL then you're probably fine). You never stated whether you're creating a PAL or NTSC DVD, and that piece of information will help determine exactly what you need to do, and which piece of script you'll need.
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