Problem rendering Motion 2 project in FCP 5.0.2

I have mutliple projects done in Motion 2, imported into FCP 5.0.2 timelines.
All projects are in NTSC DV, 720x480 format.
I am having a problem with rendering in FCP. I have one project that is a mostly static screen with one animated element, which renders fine except that it imports shifted a few pixels to the left. It's not just as simple as "move the imported file to the right to fix it", because it is actually rendering as if the entire screen in Motion were shifted over, so things at the left edge in Motion are actually cropped out in FCP.
Also, I have a problem in other where some (but not all) photos that I have cropped and scaled show up scaled and cropped completely differently in FCP (some even randomly change their scaling and cropping randomly in the middle of a move, even though in the Motion project they did not change.
So...any suggestions? I am not in charge of purchasing so I don't have the immediate option of upgrading, so I am hoping that is not the only way to fix this.
I could render out all my motion projects, but they all have transparency that is meant to layer of video in FCP and I'm not sure the best way to export (with alpha channels?). I could also redo my entire project in Motion, but I'm a week from my deadline and I need to sleep some time
Thank you for any help.

Try upgrading your system to 5.0.4.. it fixed a lot of bugs.
Jerry

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