Une ambas tablas con el mes:
SELECT MONTH(I.date) AS `month`
, COUNT(I.ID) AS `countin`
, COUNT(O.ID) AS `countOUT`
FROM TableIN I
LEFT JOIN TableOUT O
ON MONTH(I.Date) = MONTH(O.Date)
GROUP BY MONTH(I.date)
UNION
SELECT MONTH(O.date) AS `month`
, COUNT(I.ID) AS `countin`
, COUNT(O.ID) AS `countOUT`
FROM TableIN I
RIGHT JOIN TableOUT O
ON MONTH(I.Date) = MONTH(O.Date)
GROUP BY MONTH(I.date);
Resultado:
| MONTH | COUNTIN | COUNTOUT |
------------------------------
| 5 | 1 | 1 |
| 7 | 1 | 1 |
| 6 | 0 | 1 |
Ver este SQLFiddle
Además, para ordenar su resultado por mes, debe usar una subconsulta como esta:
SELECT * FROM
(
SELECT MONTH(I.date) AS `month`
, COUNT(I.ID) AS `countin`
, COUNT(O.ID) AS `countOUT`
FROM TableIN I
LEFT JOIN TableOUT O
ON MONTH(I.Date) = MONTH(O.Date)
GROUP BY MONTH(I.date)
UNION
SELECT MONTH(O.date) AS `month`
, COUNT(I.ID) AS `countin`
, COUNT(O.ID) AS `countOUT`
FROM TableIN I
RIGHT JOIN TableOUT O
ON MONTH(I.Date) = MONTH(O.Date)
GROUP BY MONTH(I.date)
) tbl
ORDER BY Month;