You can easily disable express checkout methods like PayPal Express and Apple Pay by adding the following code to your storepickup-addons.liquid file within your theme.
<script type="text/javascript">
$(document).ready(function() {
window.ZapietEvent.listen('selected_method', function(method) {
if (method == "pickup") {
$('.additional-checkout-buttons').hide();
} else {
$('.additional-checkout-buttons').show();
}
});
});
</script>