Encore DVD 2.0 Forces Transcoding on Spec MPEG Files

Since I have upgraded to Encore DVD 2.0 it insists on transcoding many of the MPEG files. The file are 720x480 NTSC and within the MPEG specs. Also the file is marked a do not transcode in the project view.
In fact if I use Encore DVD 1.5 and load the same MPEG file and create an identical project it does NOT transcode the MPEGS files.
Encore DVD 2.0 also freezes on occasion when you preview the project. Again Encore DVD 1.5 does not have that issue with the same files.
Please let me know how to correct this problem.
Thank You

The files are from DVDs I have previously created and new material. so a verity of applications. But the key here is they work perfectly with Encore DVD 1.5, and some of them were from DVD created with Encore DVD 1.0 they must have worked with with it as well.
Thanks

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