I'm also having the same issue - rejected due to a 'duplicate 1099-R'. I tried to resubmit with adding account numbers to the 3 1099-Rs that were from same Payer but different amounts, but I got another rejection today. The other 2 1099-Rs are same payer, same amount, but 1 for me and 1 for my spouse.
I was also thinking of adding a penny.
Please let us know what you find out / decide. Thanks!
