How are you adding the MAC users?
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Do you add user to IP Bindings with Type:Bypassed (http://forum.mikrotik.com/t/hotspot-mac-by-radius-auth/22546/1). When I use this method, the client is bypassed, so there is no login. Therefore, script does not run.
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Do you add new User with Name as MAC address and blank password (http://forum.mikrotik.com/t/hotspot-mac-by-radius-auth/22546/1). The script works when I use this method.
Or are you using a different method?