It would appear that this is the case. However, the best way to find out the intent of the method is to find out what the intent of the method was when developed or selected. A properly documented method should state analytes of interest and matricies for which it is intended. If this is a method that was handed to you, you may have the procedural steps that were extracted from a larger document or set of documents. The answer to this means tracking back the source of your method.
I found them all but only managed to work through vitamin D. The method was validated for drinks and foods in general(does not mention any specific matrixes used(seems wrong to me, but I don´t have alot of experience so it could be ok)). The method was validated for sum of vitamin D(D2+D3). I also found the document which the method was based on and it was european standard EVS-EN 12821

Foodstuffs- Determination of vitamine D by HPLC- measurment of cholecalciferol(D3) and ergocalciferol(D2). This one said that it has been validated for margarine, milk, milk powder etc. Both of them were not specific about the saponification but said that D2 and D3 are saponified in foodstuffs using alcoholic potassium hydroxide and extracted by an appropriate solvent.
I also found a point which was disturbing to me. The original method said that it is suitable for determination of D2 or D3 not for both of them at the same time. The reason being that if one is determined the other is used as internal standard which seems reasonable as the extraction procedure can have some losses and also the analytes can degrade. The method validated here determines both of them at the same time and doesn´t use any internal standard.
But back to the saponification purposes. The procedure is following:
I add KOH in ethanol to the sample and heat the mixture ~80C for 30 minutes. If oili content is visible I add more KOH in ethanol and heat it more. After that I add water and hexane and shake it for 3 minutes. Then I take most of the hexane phase and centrifuge it after which I take certain amount from the top and dry it in rotary evaporator. Finally I dissolve it in certain amount of ethanol and inject it to HPLC.