Since the sample map of an instrument consists of 120 static notes, it has to be rearranged every time a new scale is applied to the instrument to make sure the same samples activate at the same frequencies.

While I don't think any implicit behavior when changing scales is a good idea, it would be nice to have a manually activatable script somewhere in the instrument editor that would, given a source and destination scale, rearrange the sample map so that the transition between the samples in the destination scale happens as close as possible frequency-wise, to the source scale.