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There is no "D trigger" anywhere in the program. There is a "D-Flip-flop" and "D-Flip-flop, asynchronous". These work correctly, there's no polarity mixup.
The top output is Q (non-inverted).
The bottom output is ~Q (inverted).
Note whether the D input has been inadvertently inverted. Right-click on the flip-flop, and see if there's anything in the list of the inverted inputs. If there is, you'll need to remove those inversions.
If the flip-flop looks like the below, then the D input is inverted.
version: v0.31
There is a problem with the D trigger
Q marked as! Q;
! Q is marked with Q;
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