Mannahnin
Scion of Murgen (He/Him)
I believe I found it.
This is the inciting question, with his first response immediately after. Here is his first follow-up I think is actually relevant, and contains the first reference to the offensive idiom, with the next 8 to 10 or so posts following that up with more detailed answers.
If that's what you're referencing, I entirely disagree with your reading. I think Gary is very explicitly talking about the alignment system in the game and what a paladin would believe would be Lawful Good. It reads very much as, "this is how I would run the scenario," and not remotely like, "this is how the real world works." I have great difficulty taking what is said there and and calling it Gygax's personal philosophy and not just how the game is set up.
There are plenty of other examples that show Gary as clearly a man of his own generation at best, but I just don't see it here unless you're reaching for that conclusion from the start. Even then, I don't really think it's all that useful to take everything we don't like about the game and sweep it under the rug of, "Gary Gygax wasn't a very progressive individual." It feels like trying to exonerate it. I'd rather just take the game as it is or was, with blame falling on players who missed the problems as much as on any misguidance of the creators. That's kind of what that platitude about "it was wrong then as it is wrong now" means when you take it to heart.
He cites real life.

You're correct that in the Dragonsfoot thread Gygax is talking about what he considers to be Lawful Good, indeed, paladin, behaviour within the fictional world of D&D. But he also uses claims about the real world to justify that behaviour.
In the thread, Gygax says there are three different circumstances in which a Lawful Good paladin could kill prisoners:
1) Meting out punishment for a crime. "An eye for an eye and a tooth for a tooth is by no means anything but Lawful and Good."
2) Executing a convert so as to prevent the possibility of backsliding. "A paladin can freely dispatch prisoners of Evil alignment that have surrendered and renounced that alignment in favor of Lawful Good. They are then sent on to their reward before they can backslide."
3) "The old addage about nits making lice applies."
Both (1) and (3) are justified by reference to the real world. In the case of (1) Gygax talks about the brutal "Anglo-Saxon punishment for rape and/or murder of a woman". In support of (3) he provides the following argument (emphasis mine):
Gygax is making a claim about the real world. He is saying that it is a "fact" that the women and children of ethnic groups considered to be the "enemy" will produce more enemies. This "fact" was used by Colonel Chivington and others to justify genocide.
Historical Background on "Nits Make Lice"
In 1864, Colonel John Chivington presided over a massacre of nearly two hundred Cheyenne and Arapaho "elders, women, warriors, and children" (Kane) at Sand Creek in Colorado. Katie Kane, Nits Make Lice: Drogheda, Sand Creek, and the Poetics of Colonial Extermination (1999):
In the outcry among citizens of the Eastern part of the United States following the genocide at Sand Creek, a congressional hearing was held to investigate the charges of excessive violence and murder carried out by the Third Cavalry Regiment of Colorado Territory under the order of John Chivington. One congressional witness, S. E. Browne, credited Chivington with uttering the phrase that would resonate throughout the subsequent history of U.S.-Native American relations. Browne recalled the colonel's articulation of his strategy with regard to Colorado's "Indian problem": "early September or late in August last I heard Colonel Chivington in a public speech announce that his policy was to 'kill and scalp all, little and big; that nits made lice.'"
Kay Wright Lewis, A Curse Upon the Nation (2017), on the term's 17th century origins:
John Nalson, an English clergyman and historian, was told by a captain in the English army that "no manner of Compassion or Discrimination was shewed either to Age or Sex, but that the little Children were promiscuously sufferers with the Gulley [a large knife], and that if any who had some grains of Compassion reprehended the Soldiers for this unchristian inhumanity, they would scoffingly reply, Why? Nits will be Lice, and so would dispatch them." It is at this point that "the saying 'Nits will make lice,' which was constantly employed to justify the murder of Irish children," became part of English vernacular.
Now, do I think Gygax would acknowledge in reality that Sand Creek was an atrocity? I think so. I suspect where him being a man of his generation comes in, is that he may not have been really acknowledging to himself what he was saying here. What implicit pro-US Westward Expansion, anti-NA propaganda he accepted as a boy and the degree to which he was still not questioning it.