Flash Builder Ipa file integrity could not be verified

I'm not sure if this is the right place to post this, if not I'd appreciate any tips on where the appropriate forum would be, but I'm desperate. We have for years created ipa files for ipad using flash builder 4.7, Ad Hoc with our Apple Certificate and mobile provisioning. At some point late last year, ipads stopped allowing these apps to be downloaded, stating "the integrity of the app could not be verified". This is the same for apps that have previously been working fine on the same ipads as well. After a lot of tests, I stumbled across something called notarization that apple is now requiring, at this point I don't know what else it could be.

IF it is a notarization issue, what are the steps for this? All places I see on how to notarize are done on MAC, while we only use PC (we deliver a separate ipa file for each client so a minimum of 60 per year would be done). Can anyone point me to a step by step process on how to notarize an ipa file on PC using our existing apple certificate? I'm not sure what XCode and the submittal through the command line means if there is a PC equivilant, so bonus points if you can explain it to me like I'm 3.