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PWM Dimming the Whole Buck Regulator

Other Parts Discussed in Thread: LM3404, LM3414, LM3406

Most low voltage DC buck regulator ICs have a enable/PWM pin that can be used for dimming.  This works great. We've done this for years to drive one, two or three LEDs in series at 700mA.  We used the LM3404 previously and are using the LM3414 now.  But implementing the PWM signal in our field app. comes with some challenges too.

What would be the downsides to pulsing the entire regulator circuit?  Does anyone have any experience doing this?  Do lower(Hz) or higher (KHz or MHz) work better?  We'll have to tackle some issues on EMI/RFI filtering, transient suppression, inrush current; all things on the front end/power input of our circuit.  But what about the regulator circuit itself.  How well or not well will that run if we pulse the whole thing120-300 times a second rather than pulsing the PWM dimming or enable pin?