I'm not 100% sure if this would give the correct result, but if it is being allocated evenly, these are the two options I can think of.  If the percentage are not even, I think you are in trouble and would need to manually calculate everything (which is gruesome).

Option #1:

1. Manually apply the percentage to the 1095-A, and temporarily enter that into the program.  For example, if it says $1000 and the allocation percentage is 50%, enter $500.  Link it to the K-1, but don't fill in the allocation section.
2. Print out the tax return and look at the SEHI amount on Line 29 of Schedule 1, the repayment on Line 46 of Schedule 2, the extra PTC on Line 70 of Schedule 5, and the 8962.
3. Enter the 1095-A as it is shown.  Enter the allocation.  Link the K-1.  Override all numbers on the tax return to match Step #2.
4. Disable error checking, and e-file.