FileZilla stores all the passwords in a plain text file on your computer, and knowing this, malware authors and hackers are targeting this file. Adding master password functionality is the #1 requested feature for FileZilla. Unfortunately the author of FileZilla refuses to add this feature, insisting that it is the responsibility of the OS to protect your files. FileZilla Secure is a free FTP client that has all the features of the original FileZilla plus it encrypts your FTP passwords to help protect from hackers stealing them.
Bonus: More Speed!
The maximum number of transfer threads has been increased from 10 to 1000! While 1000 is not recommended 20, 50, and even 100 threads has been shown to work and has increased transfer speeds by over 5x.