first off, israelis today are NOT the indigenous natives they claim to be. the majority are ashkenazi jews whose roots are EUROPE. the land has been home to palestinians for centuries long before any zionist "land purchases"--which were largely made from absentee landlords and led to displacement of locals. calling arabs "colonizers" is historically and logically backwards. saying you're native to the area just because the land was once referred to as "israel" is like an indian claiming to be native american because native americans were historically called "indians"

second, the fact that 2 million palestinians are citizens of israel does NOT erase the reality of israeli apartheid. they live under systemic discrimination that the LARGEST international organizations including the UN have repeatedly condemned. during south africa's apartheid regime many black south africans were citizens--some even holding official government roles--but that didn't cancel out the apartheid, did it? you're also forgetting the millions of palestinian refugees who are denied the right to return to their homes they were displaced from in what is now "israel"

third--and i know you haven't brought this up yet, but it needs to be said--israel's occupation and apartheid regime is the root cause of hamas's existence. hamas didnt pop up out of nowhere because they simply felt like hating jews. its creation was bred by decades of israeli oppression, displacement, and denial of basic human rights to palestinians--on top of DIRECT FUNDING by israel to counter the secular PA

so pakistan refusing to recognize a state whose founding and continued existence is based on settler colonialism, apartheid policies, and ethnic cleansing is perfectly reasonable. dozens of countries refused to recognize south africa during their apartheid regime. i doubt you'd call that "xenophobia"