Flower, who had been with Emap for 13 years, begins consultancy work for sportswear brand Adidas this week and is also set to work in contract publishing over the next few months.
Jo Fraser, ad director on More, and Fiona Salmon, men's lifestyle ad manager, have also left, without jobs to go to.
The media owner has completed a month-long consultation with staff and restructured its ad teams, combining the roles of publisher, ad director and ad manager under the banner of brand director.
Emap has appointed 11 brand directors, nine commercial solutions directors and four fashion directors, all of whom report to heads of market.
Former group ad director for entertainment Chris Shepperson has become FHM brand director.
Shepperson will report to Ross Webster, Emap's head of men's lifestyle. His entertainment background, coupled with the departure of Gary Kingsnorth, FHM's fashion director, is expected to lead to a scaling back of fashion in the men's title.
Toby Morris, group ad director for men's lifestyle, becomes Arena's brand director, while Liz Jazayeri, ad manager on New Woman, becomes brand director of Zoo.
The remaining brand directors, all of whom have moved internally, are: Alison Reeves (Grazia and POP); Kerry Haynes (Heat); Kate Riddington (Closer); Vicki Clubley (First); Sarah Mitchell (More); Suosan Williams (New Woman); Stuart Galbraith (Q, Mojo and Kerrang!) and Charlotte Heybourn (Empire).
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