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Flowey is imprinted with asriels memories and personality, but was stated by himself and by Alphys to not have a SOUL many times. This is actually a plot point, as the reason Asriel did so many evil and cruel things as Flowey is due to him being a sociopath who was unable to feel anything or empathise with others - because he didn't have a SOUL. When he absorbed the souls of the other monsters in the underground, his compassion came back and he was able to be talked down from fighting by Frisk. Absorbing the human souls only gave raw power because they weren't as directly compatible I guess.