The actor was presented with the award by his TARDIS sidekick, Jenna Coleman, at a special event at the Royal Opera House in London's Covent Garden.
The awards, presented in association with Hugo Boss, are now now in their seventeenth year.
On receiving the award Capaldi said
I've been very lucky because in the past I've received awards for my acting. This is the first I've received for my personality, which I assume means they've never met me. The reason I've got this award is because I got the chance to play the roll of a lifetime twice. Malcolm Tucker in The Thick Of It. And I also got to play Doctor Who. The real people who know the personality of the year are my family - my mother and my sister and my wife who have put with my personality and endured it to the point that I can get thisPrevious GQ awards have been won by Capaldi's predecessor Matt Smith who was named Best Actor in 2010 and Most Stylish Man in 2011.