The tuna industry says it supports a proposal by Bight Petroleum to explore for oil and gas in the Great Australian Bight between Kangaroo Island and Eyre Peninsula.
But the time of year the company wants to do seismic surveys would overlap with the tuna season in South Australia.
Bight Petroleum has withdrawn its original proposal after the Federal Government moved for greater environmental scrutiny.
The company says it will apply soon for a new exploration licence.
Brian Jeffriess from the Australian Tuna Association said Bight Petroleum was keen to reduce any possible risk to tuna stocks from its planned survey work.
"What Bight has guaranteed to do is start the actual survey in an area which is the furthest away from any tuna towing or catching," he said.
"Bight Petroleum in all cases with us have acted with extreme ethical behaviour and frankly that's a reasonably new thing to us."
Greens Senator Penny Wright is adamant no time of year is appropriate for exploration near Kangaroo Island.
"What about the impact on other industries like tourism and rock lobster fishing?" she said.
"The community has clearly told me that they haven't felt that they've been consulted adequately during the whole process."
Bight said it was organising public meetings to outline its plans.
The Federal Government said any new application would still face environmental scrutiny.