I've never heard a thing about Cretans not want to cooperate with the rest of the Greek forces.
Never
If you read "The Cretan Runner" its mentioned several times that the Cretans of the "Intelligence Service" run by Force 133 in the island were VERY loath to go to Egypt for rest and recuperation, because they ran a VERY great risk of getting co-opted into the Greek Army-in-exile in Egypt, and under the control of the rump Secret Police. Many HAD to go, as Crete got too hot for individual "names" and their whereabouts too well known, but the British were VERY careful to sequester them in hotels, flats, and a camp specially hidden from the Greek Government inside an Australian camp!
Don't forget, many of the Greek Kapitans of the Resistance, ex-Greek Army officers...had been back living on the island in 1941 BECAUSE they were Venizelist officers who been purged in 1938 and 1939.