As long as you have the "G" in Box 7 it should be treated as a direct rollover and not taxed for a qualified rollover.
Please make sure you go all the way through the section after you have entered the 1099R and answer the questions carefully.
If it is still treated as a taxable distribution after doing that, delete the 1099R and re-enter everything and go through the questions again.
Also, please be sure that if the box between boxes 7 & 8 is checked on your 1099R, (indicating it is an IRA) you check it when you enter it in the software.
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