Let me take a crack at it. The calibration strategy is a code in your car's ECM that labels what version of tune, code, etc it has in it. If you have an SCT tuner and a custom tune, it is VERY important that you read your strategy and WRITE THIS DOWN SOMEWHERE!!!
Then, if you have to return your vehicle to stock to take it to the dealer, the first thing you should do before attempting to reload your tune is READ THE STRATEGY AGAIN!!! Compare the strategy to what you wrote down. If it doesn't match, you need to get in contact with whomever wrote your tunes, and give them the new strategy. They can then send you new tunes which will work with the new strategy.
Failure to do so could result in a return trip to your dealer to get your ECM reflashed, which I cannot imagine would be a pleasant experience.