"I received a 1099r for my son's estate. It has the estate tax id number not my ss#. How do I file this on my tax return?...or do I file a separate return for this?"

[macuser_22 · Accepted solution]

Assuming the 1099-R is correct, and there was no named benificuary of the retirement account or the estate was the named beneficiary (if there was a named benificuary, then contact the retirement plan administrator.)

The estate administrator would have to report that on the estates 1041 estate tax return and issue K-1's to the beneficiaries of the estate.  

Suggest that you read IRS Pub 559 (Survivors, Executors, and Administrators) for a lot of good information about filing the final return and estate return and other requirements.

https://www.irs.gov/pub/irs-pdf/p559.pdf