Oh,no. That’s a huge project. I think that will be fixed in the next days?!
I know, I had to do it in a huge project too.
But no, it’s a dropbox issue, rather than a Corona issue… A longstanding one too (with the way it handles files) so I doubt this will be fixed (by Dropbox). Perhaps Corona can think up a workaround though. 
here is a little bash script, what will do the filesystem part for you …
find . -depth | while read file; do NEWNAME=$(dirname "$file")/$(echo $(basename "$file") | tr '[:upper:]' '[:lower:]'); mv "$file" "$NEWNAME"; done
But careful, don’t use it in you HDD root folder, could be a big mess. Execute in terminal in the coronaviewer folder and you are fine.
But anyway, that’s not a fine solution all, I like my files separated by lower/higher case 
Hope there will be a workaround soon! I will not use coronaviewer until there is an alternative way to sync. Its also annoying that it’s not possible to use the standard project folder.
In addition I use git, what contains tons of files which are synced as well. At the moment I have no idea to avoid this.