A major difficulty with this question is that you seem to be defining "flapper" as a member of a discrete and clearly defined subculture, when in reality the term was used by many different people to refer to many different behaviors. I would point this this older answer of mine for a discussion of the meaning of "flapper" in the 1920s, which will hopefully clarify some things. As you can see from it, it would be next to impossible to say what the morning routine of a flapper was, the same way we can't say what the morning routine of a hipster is now. Flappers weren't a separate group from "the average woman": you might see teenage girls self-identifying as flappers, and you might see housewives out with friends on the weekend derided as flappers.

There is some discussion on cosmetic use in my answer to When did makeup become standard for women in western culture? (You may also be somewhat interested in How was the makeup of actresses like in the years leading up to the golden age of cinema? and Bob haircuts on women in 1920s America, although they're not really answers to your question.)