As I understand pedestal, it is a nominal value of 100 added to images in-camera to prevent negative image values. RAW DSLR images are slightly non-linear, hence the addition of the pedestal - it just ups the numbers.
The BatchPreprocessing script, from what I understand, subtracts the pedestal, whereas in manual preprocessing, a pedestal value, if any, should be applied specifically. The threads indicate a value of 15, which was derived experimentally.
The results obtained recently, manually preprocessing a new image set, were not as expected and I think it comes down to the application of pedestal. Interestingly, the BP script, which wasn't working for me, is now and the results are better. So I guess, pedestal is an important issue when processing manually - but what value?