Well, as it was said before, you can't GROUP
by literals, I think that you are confused cause you can ORDER
by 1, 2, 3. When you use functions as your columns, you need to GROUP by the same expression. Besides, the HAVING clause is wrong, you can only use what is in the agreggations. In this case, your query should be like this:
SELECT
LEFT(SUBSTRING(batchinfo.datapath, PATINDEX('%[0-9][0-9][0-9]%', batchinfo.datapath), 8000), PATINDEX('%[^0-9]%', SUBSTRING(batchinfo.datapath, PATINDEX('%[0-9][0-9][0-9]%', batchinfo.datapath), 8000))-1),
qvalues.name,
qvalues.compound,
MAX(qvalues.rid) MaxRid
FROM batchinfo join qvalues
ON batchinfo.rowid=qvalues.rowid
WHERE LEN(datapath)>4
GROUP BY
LEFT(SUBSTRING(batchinfo.datapath, PATINDEX('%[0-9][0-9][0-9]%', batchinfo.datapath), 8000), PATINDEX('%[^0-9]%', SUBSTRING(batchinfo.datapath, PATINDEX('%[0-9][0-9][0-9]%', batchinfo.datapath), 8000))-1),
qvalues.name,
qvalues.compound