I noticed. To be honest, they should really just put Israel instead because, no one is going to know that's a jew.
I think the best thing to do would be to pick the country and sub-province of where your oldest confirmed ancestor is from. European Jews can add Yiddish on their yfull profile to let people know the sample isn't Goy European.
However, if one is an ethnic minority and one doesn't speak a minority language that is be able to picked on yfull (African Americans and Afro-Arabs, especially Afro-Arabs) and know your ancestors came from somewhere else, you shouldn't pick a flag which confuses people about the origins of a lineage.
Many Afro-Arab Saudis/Kuwaitis/Emiratis etc ruin African haplogroups on yfull with their flags, lol. Some African lineages on yfull are majority Gulf Arab flags because they are rich and are testing more.
However, I have noticed more Egyptian and Sudanese samples coming onto yfull, many of them live in GCC countries. Perhaps this could fix the imbalance.
An African flag (including North African ones) = 10x times more valuable when it comes to ancestry information than Gulf Arab flags ones (because GCC countries had and have more cosmopolitanism).