DiskTool
A full featured Linux console or terminal file manager
...You can keep doing this until you reach the marked files limit of 2000 if you want to. Then you can go to yet another directory and either copy or move ALL of the files you marked in ALL of those directories into one place.
Of course DT does standard file functions like copy, move, and delete files or directories, but it also can zip and unzip files, edit files, rename files and directories, manage file permissions and file ownership (chmod and chown), create SymLinks, and even create a new directory