Пожалуйста, попробуйте это изменение-
SELECT
CONCAT(zxc.id,',',zxc.status_id) AS id,
zxc.employee_name,
zxc.status,
zxc.working_days,
zxc.start_date,
zxc.status_id,
zxc.id as emp_id
FROM (
SELECT
p.id,
CONCAT(p.last_name,', ',p.first_name,' ',IFNULL(p.middle_name,'')) as employee_name,
i.start_date,
i.working_days,
i.status,
i.id as status_id
FROM employees p
INNER JOIN employees_default_shifts i ON i.employee_id = p.id AND i.start_date <= '2019-10-10'
WHERE p.is_deleted = 0
ORDER BY i.start_date DESC LIMIT 1
) as zxc
ORDER BY zxc.start_date DESC