The RPA is encouraging farmers to apply for Basic Payment Scheme (BPS) before May 15.
The agency has received more than 88% of applications online from farmers that have switched from paper forms.
Farming Minister George Eustice said: "It is good to see more farmers submitting their applications online, with over 31,000 received so far. Applying online makes it easier to check and update personal and business details, as well as view and transfer land and entitlements.
"I would encourage the remaining farmers who have yet to submit their application to do so early and online, so that they can be certain the RPA will receive these ahead of the deadline."
Farmers and land managers need to submit their BPS applications before midnight on 15 May in order claim for their single farm payment for 2018.
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