This is not somehow tied to Auto Import is it? I have the "Fix Broken Links" option set to "yes"....
If you have network files in your library, I think "Yes (leave network files)" would be a better option?
.... and I understand what this means but this should ONLY apply to watch folders right?
wrong. Alex vehemently maintains that the options should only apply to the specified watched folders, and I totally agree with him.
I really think the options panel needs to be re-jigged. I mean, look at it:
If you collapse "Auto-Import Folders", the "Options" branch folds up inside it.
When you expand "Auto-Import Folders", the "Options" branch is tabbed to the right, and the whole layout
implies that the options specified apply to the watched folders listed above. Why would you think otherwise?
These options should be outside of watch folders, and instead of options, perhaps call them something descriptive of their nature such as "Additional library-wide tasks", or alternatively, and preferrably, make it so they only apply to watched folders.
-marko.