Inconsistent Adobe Dynamic Link clip corruption in Premiere Pro (All CS5)

So I'm working towards having seventeen AE compositions in a video I'm cutting with Premiere. I was chugging along just fine until most, but not all, of my clips started showing this strange diagonal line business.
When I drag the timeline over the clear areas the AR comositions look fine but things cut out over the diagonal lines and when I do a render I get what looks like the AE composition minus the odd layer.
I've not deleted or moved any of the component files for the compositions, so I'm not sure what's going on here.
After some looking around the forum, I've seen it suggested that drawing from Multiple AE Projects is a bad idea - that you should have all your compositions in one AE Project to then draw from in Premiere - but have not seen any confirmation of this.
I would greatly appreciate if anyone could help me out here as this is a project I've been working on for almost a year and I'd really like to wrap it up!

Just to be clear: you still can store dynamically linked compositions in different AE projects (which might be useful when your AE projects are quite complex or you need to distribute your work across team members), just avoid incremental numbers at the end of the names.
Dynamic Link is not the best option under all circumstances, and as Craig said sometimes rendering digital intermediate is more efficient. Check this good old discussion on Dynamic Link workflow, pay attention to Todd's comments.

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