Peterhead Port Authority backed the EU sanctions which are already in place against the Faroese following a decision by the islands' government to set its own fishing quota more than three times larger than its earlier share.
Talks are being held about how to deal with similar problems between EU states and Iceland.
John Wallace, chief executive of the port authority in north-east Scotland, said: "The pelagic stocks of mackerel and herring are in a sustainable condition because of the good husbandry carried out over many years by the EU and Norway as primary custodians. There has been a price to pay for these prized stocks and the condition they presently enjoy, which Faroe played only a very small part in.
"What is galling and offensive about this matter, is that I believe the Faroese traded away some of the pelagic quota they took for other species with Russia, even bringing in outside processors to handle product they themselves could not handle. If this had been built up gradually and responsibly with EU and Norwegian agreement and participation, we would not be where we are today.
"These sanctions have been a long time in coming into effect but have not been knee-jerk and are robustly thought through. At the end of the day, this has come down to a behavioural problem and the EU must now do all it can to ensure that Faroe and Iceland's actions are proportionately dealt with, before normal service and relations can be resumed."
The industry is worth about £500 million to the UK economy and supports 2,200 jobs, the authority said.
Herring and mackerel were included in the sanctions, first agreed in July, which could be extended to products such as fish oil, fish meal and salmon.
The long-running dispute focuses on Atlanto-Scandian herring which is distinct from herring in the North Sea and west of Scotland.
Scotland and its European neighbours have long argued that Faroe, as well as Iceland, set overly large quotas while other countries try to reduce theirs.
The Faroese economy is overwhelmingly dependent on fisheries, its government said.
Reaction to the sanctions in July, Faroe Islands prime minister Kaj Leo Holm Johannesen, who has a business background in fish exports, accused the EU of taking steps only to protect its interests.
''It is short-sighted and ill-considered of the EU to take such an unjustifiable step against one of its nearest European neighbours and partners,'' he said.