There are two things to look at:
1) The output said:
Quote:
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Remote OTA server does not match, upgrading
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Which might implies that something changed. So is this the first time you've used that development machine on that cRIO? Or are using a new version of the netbeans modules?
2)
Double check the windows fire wall. The SDK uses a java implementation of an ftp client, so the Java executable needs permission to open ports, etc.