I have a sharing service, and I have 100,000+ files on one NTFS directory on Windows 2008 server.
The question is, about performance, is it better to add all the files to mysql blob?
Storing files on filesystem vs database is discussed in detail here. Storing that many files in one directory is definitely a bad idea. You might run into performance issues.
A better idea is to create subdirectories under that directory. They can be organized by: