Kremlin spokesman Dmitry Peskov told reporters, two days after Moscow hit Odessa, "This cannot and should not affect the start of shipment."
He said Moscow's strikes targeted "exclusively" military infrastructure and were "not connected with the agreement on the export of grain."
Odessa is one of three export hubs designated in the agreement.
Western countries denounced the move, with the US saying it cast "serious doubt" on Russia's commitment to the deal.
Turkey, which helped broker the accord, said after the double cruise missile hits that it had received assurances from Moscow that Russian forces were not responsible.
The weekend strikes on Odessa came less than a day after Moscow and Kyiv signed a landmark deal to release grain exports from Ukraine's ports.
ut Russia then admitted that it had struck a Ukrainian military vessel and arms delivered by Washington.
Ukraine has denounced the strikes as "barbarism."
Ukrainian officials said grain was being stored in the port at the time of the strike, although the food stocks did not appear to have been hit.