Are there any known causes for properties on scripts resetting by themselves? Two recent updates for a mod have had all properties on several scripts reset but I only found out after the mod had been uploaded. The problem is occurring during packaging.

The only scripts that have been affected are those that I had modified after the previous update. No properties were added, only small changes to existing code.

This issue began when I started working on the mod in two different ways:
1) All .pex files are kept within the BSA so only the modified scripts would be saved as loose files for packaging into the BSA later.
2) TES5Edit has been used to clean the mod of ITMs before release.

I've tried replicating the issue by switching files out of the BSA and cleaning the mod with TES5Edit multiple times, but no results. I'm going to go ahead and keep all the .pex files out of the BSA until release to see if it happens again in the future.