Odille, since you mentioned being still fairly new to FCPX, it might be helpful to review what it’s doing under the hood (and forgive me if this info is already familiar to you).
If you’re letting FCPX do all the work (no workflows external to FCPX), and you’ve got FCPX keeping all media “internal” to the FCPX library, when you right-click a library in the Finder and select Show Package Contents, go to the Event folder for your media. Inside of that you’ll find two folders: Original Media and Transcoded Media. FCPX will rewrap your MXF files to .MOV. It does this automatically, and you’ll find those under Original Media. Upon ingest (i.e., Import Media), you have the option of creating Optimized Media and Proxy Media. Both will also be wrapped .MOV. If you don’t do this step at ingest, it can be done later by right clicking the clip in the Browser. The Optimized and Proxy Media are both a ProRes codec, but the Proxy Media is simply a smaller resolution.
You can also setup a library to store these external to the library. It wasn’t clear to me which of these three flavors of your footage you might be trying to relink back to, and whether some or all of it was external to the library and sitting on the dead harddrive. But, maybe knowing which of the three flavors you’re aiming for might help your troubleshooting.
Two thoughts:
Since you’re likely starting over with a new harddrive (and remember to always buy two–one for backup), it might be more efficient to start from scratch and let FCPX do all the work to re-create the flavors you want. So long as clip names haven’t changed, you should be able to copy/paste timelines from the original library to the new library. And of course, test this idea with a couple of clips first so you don’t spend more time on something that may not work the way you need it to.
The high contrast clips isn’t an issue I’ve encountered before, even after a relink. Makes me wonder if a setting got changed for the Color Space Override, or a LUT was applied. Go to the Inspector (Command 4) and go to Settings (under Metadata Views). There you’ll see a variety of settings for a clip, such as Video Roles, Alpha Handling, etc.
Best of luck in getting yourself back up to speed! Dead harddrives are indeed sad (and stressful) events.
— Joby.