In the past I've had to build aluminum molds that were subsequently used to pour urethane parts. The urethane had something like a 5% shrink when cured. So, I had to build the molds with that added size so they'd shrink to nominal.
Unfortunately, unless things are different now, scaling a model is NOT a feature in the model tree. It's a one-time change to all the geometry. The only way to "undo" it is to scale the model again with the reciprocal of the original scale. So, if we found a new formulation of urethane that was going to replace the original one, and it had a different shrink factor, I'd have to apply a new scale to make the model fit the new shrinkage.
In order to save anyone working on the part in the future (maybe even me), I would either put some notes in the relations as comments, documenting the scale factor used and any other pertinent info, or sometimes I'd add an annotation to the part detailing the same information.
The trouble with this, as you might have guessed, is that if the design of the part being molded is changed, the geometry of the mold will not be automatically changed to accommodate the changes. I'd have to re-create the mold, etc.
So, if you can use the Pro/Mold package it's probably a lot easier to handle this stuff, but it is possible to do this kind of thing if you're careful about documenting the transformations you've applied to the various models, too.
