I have had the exact same issue. Going through the forms I think that they are filled out properly but line 12 of chart A of form T936 is mislabelled. I don't know how the e-file works transmitting the data but perhaps that is the issue. I know the forms had been held up because the CRA hadn't finalized them yet.
Try this workaround: enter 100% ownership at the top and then half of all values into boxes for each person. (I also only entered capital gains in box 53, using the same value as line 21, half the total, instead of dividing the time periods.). Then the values for line 68140 on T936 were correct and agreed with Schedule 3 line 17600, and try to file.
We are aware of this issue, and our development team is working on a resolution. We appreciate your patience.
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