If your Alero is a 2000-2003 you really should just have a dealership reflash the ECM. If I'm reading your posts correctly the tune was done BEFORE the S/C which makes it useless. Reflashing will restore normal operation AND setup the additional data tables for boosted operation, not perfect but a safe useable starting point. After that you may want to look at having a HPTune redone for your platform...
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