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Upon checking your form "Membership Application Form", I did not find any issue with the auto-responder email alert you have added. It should send the auto response emails without any issue.
Your form seems to have only 3 submissions out of which 2 is from October and only one was received on November 29, 2014. The reason why the auto response must have not been sent because the email address of the use is not valid. Please check the screenshot below:
The other two submissions were sent successfully. Please check the logs of your email history:[2014-10-30 11:39:03] Submission #290492743822829922 Form #43012884505148 SENT to email@example.com from firstname.lastname@example.org via AMAZONSES
[2014-10-29 23:02:31] Submission #290447351101701632 Form #43012884505148 SENT to email@example.com from firstname.lastname@example.org via AMAZONSES
It seems you have received several "Incomplete Payments" as well. If you want to send submission emails for the incomplete payments, you need to allow it. The following guide should help you: https://www.jotform.com/help/273-How-to-setup-Incomplete-Payment-Notification-E-mail
Hope this helps.
Do get back to us if you have any questions.