Loss of Image/Thumbnail Views in Plug-in with use of Sub-Directory Layout

To whom this may concern,

I have implemented the Photo Gallery plug-in onto my website and although I’ve had a few problems my major problem is that I would like to organize pictures uploaded into the photo-gallery folder of uploads in FTP into sub-folders. I first uploaded the pictures to WordPress Media then imported them to the photo-gallery folder via the plug-in. From there, I went into FTP and setup folders beneath photo-gallery to organize pictures into an album then galleries individually for organization purposes. Once I did this, I re-added the images into the gallery and the thumbnails would not generate anymore. Is there anyway to resolve this?

Also, the following issues were run into during my attempts:

1. I couldn’t upload images directly to the plug-in or through FTP – only method that worked would be to upload to Media then import to plug-in.

2. The search bar did not function properly when attempting to search for specific pictures. It instead showed the album instead of any pictures with the text in it’s title.

3. The ordering system caused the images to vanish once I tried to organize them in a different way. I disabled this.

Thanks