Problems with missing media in compound clips in archived projects...

I archived some FCPX projects as sparse disk bundles. When I archived them, to save space, I deleted the optimized and proxy media, and only kept the original files (which are AVCHD), so that saved a lot of space. Now I find that I need to go back and edit the projects some more and make some changes. So I opened the sparse disk bundles and transcoded the media again into optimized and proxy media.
The problem I'm having is that most of the clips in these projects are compound clips. And I'm getting the red screen with the "T" and the exclamation mark in the yellow triangle. I presume that means footage is missing?
How do I solve this? Did I somehow screw up in a way that I've lost all these compound clips?
Or is FCPX maybe looking for the media that composes the compound clips in areas where it no longer is?
I should note that I made sparse disk bundles of these clips after all the editing was done. In other words, when I created the compound clips, the projects were not in these sparse disk bundles. I'm guessing that is what's causing this problem and that I just have to somehow "tell" FCPX where to find the media from the compound clips.

I am using 10.1.1 on OS X 10.9.3 Mavricks.
Here are two screenshots the first is how the timeline should look and the second is with the clips missing.

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