While Updating mods for stardew valley,
I noticed that the mods were not working so i unistalled them and installed the older version which were working, I did some poking around in the directory while installing and un-installing mods and noticed:
In the mod folder the files were all there,
I then unistalled them and they went away, so I installed the newer versions and the files never went to the folders.
I got in touch with the mod creater and i was told to post here as it is vortex.
I did a manual update to the mods and they work.
Not sure what else i could put, but if you require more info, let me know