Facing its final year of sugar cane production, Hawaiian Commercial &Sugar Co. has agreed to settle a huge number of alleged clean-air-related violations by paying $600,000.

The alleged violations occurred from 2009 to 2014 at its sugar mill in Puunene in Central Maui and were related mainly to excess smokestack emissions and reporting violations, the state said Thursday.

The company, a division of Alexander &Baldwin Inc., agreed to pay $300,000 in monetary penalties and $300,000 toward environmental projects, including the installation of three air monitoring stations at various Maui schools.

Under the state Department of Health’s consent order, HC&S also agreed to support a University of Hawaii project that would help predict volcanic air emissions.

But the company did not admit to any violations.

Negotiations have taken close to two years.

“With the impending end of the last sugar cane commercial operations in Hawaii, the department is working to bring closure to a number of complex and long-standing regulatory issues,” said Keith Kawaoka, department deputy director for environmental health.

The department said it is continuing to monitor clean-air-related activities by the company and said it has issued two other enforcement violations.

HC&S said the terms of the settlement provide a fair and appropriate resolution.