FTP Site File Upload Issue

Due to security settings set by our IT Department, we have to schedule our TOAD Automation templates directly in Windows Task Scheduler instead of scheduling using TOAD Job Manager.
I have an Automation Template that exports a csv file to a shared drive and then uploads the file to an ftp site.
When I run the automation by kicking off the job in Task Scheduler, the ftp site connection is successful but the file isn't found. However, when I run the same Automation Template in Toad, the ftp site connection is successful and the file is uploaded with no problem. In both cases, I have watched the folder in which the csv file saved and the file is there at the time that the log shows that the automation is attempting to upload the file to the ftp site.
Please advise.