Is there a way to limit OS X when searching for apps?

My issue is that OS X is finding multiple versions of applications. When opening a file with the "Open with ..." option, I see multiple versions of an app.

This is being caused by having multiple OS X partitions mounts. I'm not sure which process searches for apps, but I used the lsregister -dump command to see that the database contains a version from each of my boot partitions.

Does anyone know what process does this? Is there a way to limit this process to certain partitions?