The solution may be one or both of the following:
Possible solution #1
Lets say you have version 1.1 & 1.2 of your app. Let's also say that you have only one file: 'YourApp.exe".
Flip to the 1.1 tab, and click YourApp.exe. Check the 'Local path' field:
[attachment=0]patch-example.png[/attachment]
Is the 1.1 version Local path different than the 1.2 version Local path? (They should be).
Possible solution #2
Is the 1.1 version of the YourApp.exe file actually the 1.1 file? I.e. check if it hasn't already been updated, or it's not a different build (debug vs. release).