The Mexican ambassador complained to the BBC about the "outrageous, vulgar and inexcusable insults" made on the show after Hammond joked that Mexican cars reflected national characteristics, saying they were "just going to be lazy, feckless, flatulent".
But Coogan said the adjectives better described Hammond's comic approach.
And he also criticised the BBC for, saying its "initial mealy-mouthed apology was pitiful" and it defence of the presenters amounted to "tolerance of casual racism".
The corporation wrote to His Excellency Eduardo Medina-Mora Icaza to say it was sorry if the programme, broadcast on January 30, caused offence.
But it claimed that national stereotyping was part of British humour and the remarks were akin to labelling Italians as disorganised and over dramatic, the French as arrogant and the Germans as over-organised.
Writing in the Observer, Coogan said: "All the examples it uses to legitimise this hateful rubbish are relatively prosperous countries full of white people. How about if the Lads had described Africans as lazy, feckless etc? Or Pakistanis? The Beeb's hand-wringing suggested tolerance of casual racism, arguably the most sinister kind."
Coogan said he was a "huge fan" of Top Gear and normally regarded the presenters' irreverence as part of the "rough and tumble" that goes with having a sense of humour, but he said there was a "strong ethical dimension" to the best comedy which actively challenges prejudices rather than reinforcing them, laughing at hypocrisy and narrow mindedness.
He said the presenters wore their offensiveness like a "badge of pride" and mistakenly believed it gave them an "anti-establishment aura of coolness" when in fact it was "uber-conservative".
Coogan, who admitted he was now unlikely to be invited back on the show, said the comments were all the worse because with its high viewing figures Top Gear was often the "public face of the BBC".
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