Michael,
Changing the DJ clips to match the vid clips and sequence setting (DVCPRO HD720p60) was the idea I came up with late yesterday. But after using Compressor conversion set to those settings, I ran into a problem when plugging them back in to the timeline. Compressor had taken away the alpha.
I have the least experience with Compressor of all the software I work with. In my initial look through Compressor 3.0.3, I could not find a setting that would give me both the settings I need – DVCPRO HD720P60 and Alpha. Do you happen to know of a way to get both those settings?
NOTE: The DJ files are native .mov files. But those native files do not come in with alpha. You have to use the “Juicer” from digital juice to render them. And it only gives you the following settings to choose from:

and

But can Compressor do the work that the “Juicer” is doing, but with more choices (with hopefully one of those being the DVCPRO HD720P60 and Alpha)?
Or do I have any other options to get these files into the same format before getting them into the timeline?
Oh, and yes I did change the scratch disc. Thankfully, even though I had never heard not to have it on your main HD, I had always been keeping it on an external drive. And I had only changed it yesterday to see if it sold help speed things up. But now I know never to do that again. 🙂
Thanks so much for any more thoughts you might have.
Dale Suffridge