VFA flags stsnd alone. Its not rocket science.If Port thinks "Champion of Australia" counts then it counts. It might not mean jack to you, me or anyone else but it means something to them.
Again is not about the relative merit of the achievement, it's just a tally of the achievement.
To bring it back to pre 1897 VFA premierships. They are VFA premierships they go on the VFA/VFL tally not on the VFL/AFL tally as they aren't VFL/AFL records they are meaningless to the offical record of the VFL/AFL competition.