Replace the ID of the service in $to_skip = array( 164 ); and $to_skip = array( 13723 ); with the needed service ID.

disable-woo-checkout-for-service.php

<?php

//update appointment status
function __complete_appointment( $appointment_id ) {
        if ( ! isset( $appointment_id ) ) {
                return;
        }
        $appointment = jet_apb()->db->get_appointment_by( 'ID', $appointment_id );
        if ( ! $appointment ) {
                return;
        }
        jet_apb()->db->appointments->update(
                array( 'status' => 'completed', ),
                array( 'ID' => $appointment_id, )
        );
        jet_apb()->db->maybe_exclude_appointment_date( $appointment );
}

//disable WC-JetAppointment integration in JetEngine for specified services 
add_action( 'jet-apb/form/notification/success', function( $appointments ) {
    //IDs of services that should not be WC integrated
    $to_skip = array( 164 );
    foreach( $appointments as $item ) {
        if ( in_array( $item['service'], $to_skip ) ) {
            remove_action( 'jet-apb/form/notification/success', array( jet_apb()->wc, 'process_wc_notification' ), 10 );
            __complete_appointment( $item['ID'] );
        }
    }
}, 0 );

////disable WC-JetAppointment integration in JetFormBuilder for specified services 
add_action( 'jet-apb/jet-fb/action/success', function( $appointments ) {
    //IDs of services that should not be WC integrated
    $to_skip = array( 13723 );
    foreach( $appointments as $item ) {
        if ( in_array( $item['service'], $to_skip ) ) {
            remove_action( 'jet-apb/jet-fb/action/success', array( jet_apb()->wc, 'process_wc_notification' ), 10 );
            __complete_appointment( $item['ID'] );
        }
    }
}, 0 );