> Fatal error: Maximum execution time of 90 seconds exceeded in
:\apache\htdocs\fnusa\releases\ftp.php on line 28

This means that after entering in passive mode it has used 90 seconds of
processor time and times out. Set this timeout higher in php.ini. And I
would add this to the source just before the most time consuming statement:

fputs( $fp, "STOR $source_file\r\n" );

When called, set_time_limit() restarts the timeout counter from zero. Still
when the uploading takes more than 90 seconds, it will be interrupted. And
in fact you will never know how long it takes.

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